https://launchpad.net/ubuntu/+source/r-base/3.5.1.20181215-1/+build/15784596 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-051 4.4.0-140-generic #166-Ubuntu SMP Wed Nov 14 20:09:47 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 15 Dec 23:11:12 ntpdate[1808]: adjust time server 10.211.37.1 offset 0.001345 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15784596 /home/buildd/filecache-default/020b0022f770b890c357907d03d82568c584d50e Creating target for build PACKAGEBUILD-15784596 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15784596 Starting target for build PACKAGEBUILD-15784596 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15784596 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15784596 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15784596 Updating target for build PACKAGEBUILD-15784596 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 Packages [1006 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe amd64 Packages [8972 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5152 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 Packages [59.3 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [27.5 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 Packages [743 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [313 kB] Fetched 17.2 MB in 5s (3466 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu dpkg dpkg-dev libassuan0 libbinutils libdpkg-perl libgpg-error0 libsqlite3-0 linux-libc-dev 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6051 kB of archives. After this operation, 80.9 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg amd64 1.19.2ubuntu2 [1101 kB] Get:2 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgpg-error0 amd64 1.33-3 [57.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco/main amd64 libsqlite3-0 amd64 3.26.0-3 [530 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-11ubuntu1 [1829 kB] Get:5 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libbinutils amd64 2.31.1-11ubuntu1 [484 kB] Get:6 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils amd64 2.31.1-11ubuntu1 [3396 B] Get:7 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-common amd64 2.31.1-11ubuntu1 [194 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg-dev all 1.19.2ubuntu2 [549 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 libdpkg-perl all 1.19.2ubuntu2 [227 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libassuan0 amd64 2.5.2-1 [35.1 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 linux-libc-dev amd64 4.19.0-9.10 [1041 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6051 kB in 0s (14.3 MB/s) (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.2ubuntu2_amd64.deb ... Unpacking dpkg (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Setting up dpkg (1.19.2ubuntu2) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.33-3_amd64.deb ... Unpacking libgpg-error0:amd64 (1.33-3) over (1.32-3) ... Setting up libgpg-error0:amd64 (1.33-3) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../0-libsqlite3-0_3.26.0-3_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.26.0-3) over (3.26.0-2) ... Preparing to unpack .../1-binutils-x86-64-linux-gnu_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../2-libbinutils_2.31.1-11ubuntu1_amd64.deb ... Unpacking libbinutils:amd64 (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../3-binutils_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../4-binutils-common_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils-common:amd64 (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../5-dpkg-dev_1.19.2ubuntu2_all.deb ... Unpacking dpkg-dev (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Preparing to unpack .../6-libdpkg-perl_1.19.2ubuntu2_all.deb ... Unpacking libdpkg-perl (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Preparing to unpack .../7-libassuan0_2.5.2-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.2-1) over (2.5.1-2) ... Preparing to unpack .../8-linux-libc-dev_4.19.0-9.10_amd64.deb ... Unpacking linux-libc-dev:amd64 (4.19.0-9.10) over (4.18.0-11.12) ... Setting up linux-libc-dev:amd64 (4.19.0-9.10) ... Setting up libdpkg-perl (1.19.2ubuntu2) ... Setting up binutils-common:amd64 (2.31.1-11ubuntu1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:amd64 (3.26.0-3) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up libbinutils:amd64 (2.31.1-11ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.31.1-11ubuntu1) ... Setting up binutils (2.31.1-11ubuntu1) ... Setting up dpkg-dev (1.19.2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15784596 amd64 disco-proposed -c chroot:build-PACKAGEBUILD-15784596 --arch=amd64 --dist=disco-proposed --nolog -A r-base_3.5.1.20181215-1.dsc Initiating build PACKAGEBUILD-15784596 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-140-generic #166-Ubuntu SMP Wed Nov 14 20:09:47 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-051.buildd +==============================================================================+ | r-base 3.5.1.20181215-1 (amd64) 15 Dec 2018 23:11 | +==============================================================================+ Package: r-base Version: 3.5.1.20181215-1 Source Version: 3.5.1.20181215-1 Distribution: disco-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/r-base-ByayZ3/r-base-3.5.1.20181215' with '<>' I: NOTICE: Log filtering will replace 'build/r-base-ByayZ3' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15784596/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- r-base_3.5.1.20181215-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-R0kdqp/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-R0kdqp/apt_archive ./ InRelease Get:2 copy:/<>/resolver-R0kdqp/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-R0kdqp/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-R0kdqp/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-R0kdqp/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (213 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-R0kdqp/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12668 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: gcc (>= 4:4.1.0), g++ (>= 4:4.1.0), gfortran (>= 4:4.1.0), libblas-dev, liblapack-dev (>= 3.1.1), tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper (>= 7.2.3), texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre3-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff5-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk | openjdk-10-jdk, mpack, bash-completion Filtered Build-Depends: gcc (>= 4:4.1.0), g++ (>= 4:4.1.0), gfortran (>= 4:4.1.0), libblas-dev, liblapack-dev (>= 3.1.1), tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper (>= 7.2.3), texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre3-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff5-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk | openjdk-10-jdk, mpack, bash-completion dpkg-deb: building package 'sbuild-build-depends-r-base-dummy' in '/<>/resolver-CKrDdm/apt_archive/sbuild-build-depends-r-base-dummy.deb'. Ign:1 copy:/<>/resolver-CKrDdm/apt_archive ./ InRelease Get:2 copy:/<>/resolver-CKrDdm/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-CKrDdm/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-CKrDdm/apt_archive ./ Sources [520 B] Get:5 copy:/<>/resolver-CKrDdm/apt_archive ./ Packages [806 B] Fetched 3445 B in 0s (189 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install r-base build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: adwaita-icon-theme autoconf automake autopoint autotools-dev bash-completion bison bsdmainutils ca-certificates-java dbus dbus-user-session dconf-gsettings-backend dconf-service debhelper default-jdk default-jdk-headless default-jre default-jre-headless dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base gfortran gfortran-8 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gir1.2-pango-1.0 glib-networking glib-networking-common glib-networking-services groff-base gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme humanity-icon-theme icu-devtools intltool-debian java-common libarchive-zip-perl libasn1-8-heimdal libasound2 libasound2-data libatk-bridge2.0-0 libatk1.0-0 libatk1.0-data libatspi2.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbison-dev libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcolord2 libcroco3 libcups2 libcupsimage2 libcurl4 libcurl4-openssl-dev libdatrie1 libdbus-1-3 libdconf1 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libepoxy0 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libfribidi-dev libfribidi0 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran-8-dev libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libglvnd0 libglx-mesa0 libglx0 libgraphite2-3 libgraphite2-dev libgs9 libgs9-common libgssapi-krb5-2 libgssapi3-heimdal libgtk-3-0 libgtk-3-common libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice-dev libice6 libicu-dev libicu63 libijs-0.35 libjbig-dev libjbig0 libjbig2dec0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjson-glib-1.0-0 libjson-glib-1.0-common libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm7 liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmime-charset-perl libmpdec2 libncurses-dev libncurses5-dev libnghttp2-14 libnspr4 libnss3 libpam-systemd libpango-1.0-0 libpango1.0-dev libpangocairo-1.0-0 libpangoft2-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libpipeline1 libpixman-1-0 libpixman-1-dev libpng-dev libpotrace0 libproxy1v5 libpsl5 libptexenc1 libpthread-stubs0-dev libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libreadline-dev librest-0.7-0 libroken18-heimdal librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules-db libsensors4 libsigsegv2 libsm-dev libsm6 libsombok3 libsoup-gnome2.4-1 libsoup2.4-1 libsynctex2 libtcl8.6 libteckit0 libtexlua52 libtexlua53 libtexluajit2 libtext-unidecode-perl libthai-data libthai0 libtiff-dev libtiff5 libtiff5-dev libtiffxx5 libtk8.6 libtool libunicode-linebreak-perl libunwind8 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp6 libwind0-heimdal libwoff1 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb-sync1 libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont2 libxft-dev libxft2 libxi6 libxinerama1 libxkbcommon0 libxkbfile1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxshmfence1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 libxxf86vm1 libxxhash0 libzzip-0-13 m4 man-db mime-support mpack openjdk-11-jdk openjdk-11-jdk-headless openjdk-11-jre openjdk-11-jre-headless pango1.0-tools pkg-config po-debconf poppler-data preview-latex-style python python-minimal python2 python2-minimal python2.7 python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal shared-mime-info t1utils tcl8.6 tcl8.6-dev tex-common texinfo texlive-base texlive-binaries texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-plain-generic tk8.6 tk8.6-dev ubuntu-mono ucf uuid-dev x11-common x11-xkb-utils x11proto-core-dev x11proto-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc bison-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-8-multilib gfortran-8-doc libgfortran5-dbg libcoarrays-dev groff libasound2-plugins alsa-utils liblapack-doc libcairo2-doc colord cups-common libcurl4-doc libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev libssl-dev libglib2.0-doc libgdk-pixbuf2.0-bin | libgdk-pixbuf2.0-dev libxml2-utils libgraphite2-utils krb5-doc krb5-user gvfs libice-doc icu-doc liblcms2-utils liblzma-doc libencode-hanextra-perl libpod2-base-perl ncurses-doc imagemagick libpango1.0-doc pciutils pcscd readline-doc librsvg2-bin lm-sensors libsm-doc libtool-doc gcj-jdk libx11-doc libxcb-doc libxext-doc libxt-doc m4-doc apparmor less www-browser mail-transport-agent inews openjdk-11-demo openjdk-11-source visualvm libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic libmail-box-perl poppler-utils ghostscript fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum python-doc python-tk python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.7-venv python3.7-doc tcl-tclreadline tcl8.6-doc texinfo-doc-nonfree gv | postscript-viewer perl-tk xpdf-reader | pdf-viewer chktex dvidvi dvipng fragmaster lacheck latexdiff latexmk purifyeps xindy cm-super texlive-fonts-extra-doc texlive-fonts-recommended-doc texlive-latex-base-doc python-pygments icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl texlive-latex-extra-doc texlive-latex-recommended-doc texlive-pstricks dot2tex prerex ruby-tcltk | libtcltk-ruby texlive-pictures-doc vprerex tk8.6-doc Recommended packages: curl | wget | lynx at-spi2-core bzip2-doc libcupsfilters1 libarchive-cpio-perl libgdk-pixbuf2.0-bin xdg-user-dirs fonts-droid-fallback libgtk-3-bin krb5-locales libpng-tools publicsuffix libsasl2-modules libltdl-dev libwww-perl libxml-sax-expat-perl libatk-wrapper-java-jni fonts-dejavu-extra libmail-sendmail-perl lmodern ghostscript libfile-homedir-perl libyaml-tiny-perl ruby | ruby-interpreter fonts-adf-accanthis fonts-adf-berenis fonts-adf-gillius fonts-adf-universalis fonts-cabin fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-go fonts-junicode fonts-lato fonts-linuxlibertine fonts-lobstertwo fonts-noto-hinted fonts-noto-mono fonts-oflb-asana-math fonts-open-sans fonts-roboto-hinted fonts-roboto-unhinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix texlive-fonts-extra-links tex-gyre tipa tk xterm | x-terminal-emulator libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: adwaita-icon-theme autoconf automake autopoint autotools-dev bash-completion bison bsdmainutils ca-certificates-java dbus dbus-user-session dconf-gsettings-backend dconf-service debhelper default-jdk default-jdk-headless default-jre default-jre-headless dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base gfortran gfortran-8 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gir1.2-pango-1.0 glib-networking glib-networking-common glib-networking-services groff-base gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme humanity-icon-theme icu-devtools intltool-debian java-common libarchive-zip-perl libasn1-8-heimdal libasound2 libasound2-data libatk-bridge2.0-0 libatk1.0-0 libatk1.0-data libatspi2.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libbison-dev libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcolord2 libcroco3 libcups2 libcupsimage2 libcurl4 libcurl4-openssl-dev libdatrie1 libdbus-1-3 libdconf1 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libepoxy0 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libfribidi-dev libfribidi0 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran-8-dev libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libglvnd0 libglx-mesa0 libglx0 libgraphite2-3 libgraphite2-dev libgs9 libgs9-common libgssapi-krb5-2 libgssapi3-heimdal libgtk-3-0 libgtk-3-common libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice-dev libice6 libicu-dev libicu63 libijs-0.35 libjbig-dev libjbig0 libjbig2dec0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjson-glib-1.0-0 libjson-glib-1.0-common libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm7 liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmime-charset-perl libmpdec2 libncurses-dev libncurses5-dev libnghttp2-14 libnspr4 libnss3 libpam-systemd libpango-1.0-0 libpango1.0-dev libpangocairo-1.0-0 libpangoft2-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libpipeline1 libpixman-1-0 libpixman-1-dev libpng-dev libpotrace0 libproxy1v5 libpsl5 libptexenc1 libpthread-stubs0-dev libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libreadline-dev librest-0.7-0 libroken18-heimdal librsvg2-2 librsvg2-common librtmp1 libsasl2-2 libsasl2-modules-db libsensors4 libsigsegv2 libsm-dev libsm6 libsombok3 libsoup-gnome2.4-1 libsoup2.4-1 libsynctex2 libtcl8.6 libteckit0 libtexlua52 libtexlua53 libtexluajit2 libtext-unidecode-perl libthai-data libthai0 libtiff-dev libtiff5 libtiff5-dev libtiffxx5 libtk8.6 libtool libunicode-linebreak-perl libunwind8 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwebp6 libwind0-heimdal libwoff1 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb-sync1 libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont2 libxft-dev libxft2 libxi6 libxinerama1 libxkbcommon0 libxkbfile1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxshmfence1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 libxxf86vm1 libxxhash0 libzzip-0-13 m4 man-db mime-support mpack openjdk-11-jdk openjdk-11-jdk-headless openjdk-11-jre openjdk-11-jre-headless pango1.0-tools pkg-config po-debconf poppler-data preview-latex-style python python-minimal python2 python2-minimal python2.7 python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal sbuild-build-depends-r-base-dummy shared-mime-info t1utils tcl8.6 tcl8.6-dev tex-common texinfo texlive-base texlive-binaries texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-plain-generic tk8.6 tk8.6-dev ubuntu-mono ucf uuid-dev x11-common x11-xkb-utils x11proto-core-dev x11proto-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev 0 upgraded, 351 newly installed, 0 to remove and 0 not upgraded. Need to get 921 MB of archives. After this operation, 2491 MB of additional disk space will be used. Get:1 copy:/<>/resolver-CKrDdm/apt_archive ./ sbuild-build-depends-r-base-dummy 0.invalid.0 [1136 B] Get:2 http://ftpmaster.internal/ubuntu disco/main amd64 libpython3.7-minimal amd64 3.7.2~rc1-1 [545 kB] Get:3 http://ftpmaster.internal/ubuntu disco/main amd64 libexpat1 amd64 2.2.6-1 [87.2 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main amd64 python3.7-minimal amd64 3.7.2~rc1-1 [1685 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 python3-minimal amd64 3.7.1-1ubuntu1 [23.6 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main amd64 mime-support all 3.60ubuntu1 [30.1 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main amd64 libmpdec2 amd64 2.4.2-2 [84.1 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 libpython3.7-stdlib amd64 3.7.2~rc1-1 [1732 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 python3.7 amd64 3.7.2~rc1-1 [277 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main amd64 libpython3-stdlib amd64 3.7.1-1ubuntu1 [7128 B] Get:11 http://ftpmaster.internal/ubuntu disco/main amd64 python3 amd64 3.7.1-1ubuntu1 [47.2 kB] Get:12 http://ftpmaster.internal/ubuntu disco/main amd64 libxau6 amd64 1:1.0.8-1 [8376 B] Get:13 http://ftpmaster.internal/ubuntu disco/main amd64 libbsd0 amd64 0.9.1-1 [44.6 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main amd64 libxdmcp6 amd64 1:1.1.2-3 [10.7 kB] Get:15 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb1 amd64 1.13.1-2 [45.2 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-data all 2:1.6.7-1 [113 kB] Get:17 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-6 amd64 2:1.6.7-1 [572 kB] Get:18 http://ftpmaster.internal/ubuntu disco/main amd64 libxext6 amd64 2:1.3.3-1 [29.4 kB] Get:19 http://ftpmaster.internal/ubuntu disco/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:20 http://ftpmaster.internal/ubuntu disco/main amd64 groff-base amd64 1.22.3-10 [1153 kB] Get:21 http://ftpmaster.internal/ubuntu disco/main amd64 libpipeline1 amd64 1.5.0-2 [25.7 kB] Get:22 http://ftpmaster.internal/ubuntu disco/main amd64 man-db amd64 2.8.4-3 [1028 kB] Get:23 http://ftpmaster.internal/ubuntu disco/main amd64 x11-common all 1:7.7+19ubuntu8 [22.5 kB] Get:24 http://ftpmaster.internal/ubuntu disco/main amd64 libice6 amd64 2:1.0.9-2 [40.2 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main amd64 libsm6 amd64 2:1.2.2-1 [15.8 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main amd64 libxxf86vm1 amd64 1:1.1.4-1 [10.6 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main amd64 poppler-data all 0.4.9-2 [1475 kB] Get:28 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2.7-minimal amd64 2.7.15-5 [335 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main amd64 python2.7-minimal amd64 2.7.15-5 [1308 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main amd64 python2-minimal amd64 2.7.15-3 [28.1 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main amd64 python-minimal amd64 2.7.15-3 [5996 B] Get:32 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2.7-stdlib amd64 2.7.15-5 [1909 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main amd64 python2.7 amd64 2.7.15-5 [239 kB] Get:34 http://ftpmaster.internal/ubuntu disco/main amd64 libpython2-stdlib amd64 2.7.15-3 [7728 B] Get:35 http://ftpmaster.internal/ubuntu disco/main amd64 libpython-stdlib amd64 2.7.15-3 [5824 B] Get:36 http://ftpmaster.internal/ubuntu disco/main amd64 python2 amd64 2.7.15-3 [26.5 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main amd64 python amd64 2.7.15-3 [7828 B] Get:38 http://ftpmaster.internal/ubuntu disco/main amd64 ucf all 3.0038 [50.5 kB] Get:39 http://ftpmaster.internal/ubuntu disco/main amd64 tex-common all 6.10 [32.6 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main amd64 libdbus-1-3 amd64 1.12.10-1ubuntu2 [177 kB] Get:41 http://ftpmaster.internal/ubuntu disco/main amd64 dbus amd64 1.12.10-1ubuntu2 [151 kB] Get:42 http://ftpmaster.internal/ubuntu disco/main amd64 libmagic-mgc amd64 1:5.34-2 [197 kB] Get:43 http://ftpmaster.internal/ubuntu disco/main amd64 libmagic1 amd64 1:5.34-2 [72.3 kB] Get:44 http://ftpmaster.internal/ubuntu disco/main amd64 file amd64 1:5.34-2 [22.8 kB] Get:45 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-0 amd64 2.58.1-2 [1176 kB] Get:46 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgirepository-1.0-1 amd64 1.58.2-1 [82.2 kB] Get:47 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gir1.2-glib-2.0 amd64 1.58.2-1 [132 kB] Get:48 http://ftpmaster.internal/ubuntu disco/main amd64 libelf1 amd64 0.175-1 [44.2 kB] Get:49 http://ftpmaster.internal/ubuntu disco/main amd64 libfribidi0 amd64 1.0.5-3 [26.1 kB] Get:50 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-data all 2.58.1-2 [5476 B] Get:51 http://ftpmaster.internal/ubuntu disco/main amd64 libicu63 amd64 63.1-5 [8284 kB] Get:52 http://ftpmaster.internal/ubuntu disco/main amd64 libpam-systemd amd64 239-7ubuntu15 [114 kB] Get:53 http://ftpmaster.internal/ubuntu disco/main amd64 libxml2 amd64 2.9.4+dfsg1-7ubuntu3 [625 kB] Get:54 http://ftpmaster.internal/ubuntu disco/main amd64 shared-mime-info amd64 1.10-1 [428 kB] Get:55 http://ftpmaster.internal/ubuntu disco/main amd64 xkb-data all 2.23.1-1ubuntu1.18.10.1 [325 kB] Get:56 http://ftpmaster.internal/ubuntu disco/main amd64 bash-completion all 1:2.8-1ubuntu1 [168 kB] Get:57 http://ftpmaster.internal/ubuntu disco/main amd64 gettext-base amd64 0.19.8.1-9 [50.1 kB] Get:58 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm-common all 2.4.95-1 [5000 B] Get:59 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm2 amd64 2.4.95-1 [30.6 kB] Get:60 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libedit2 amd64 3.1-20181209-1 [85.9 kB] Get:61 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5support0 amd64 1.16.1-1ubuntu1 [31.0 kB] Get:62 http://ftpmaster.internal/ubuntu disco/main amd64 libk5crypto3 amd64 1.16.1-1ubuntu1 [85.5 kB] Get:63 http://ftpmaster.internal/ubuntu disco/main amd64 libkeyutils1 amd64 1.5.9-9.3 [9640 B] Get:64 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5-3 amd64 1.16.1-1ubuntu1 [281 kB] Get:65 http://ftpmaster.internal/ubuntu disco/main amd64 libgssapi-krb5-2 amd64 1.16.1-1ubuntu1 [122 kB] Get:66 http://ftpmaster.internal/ubuntu disco/main amd64 libpsl5 amd64 0.20.2-2 [50.0 kB] Get:67 http://ftpmaster.internal/ubuntu disco/main amd64 libxmuu1 amd64 2:1.1.2-2 [9674 B] Get:68 http://ftpmaster.internal/ubuntu disco/main amd64 xauth amd64 1:1.0.10-1 [24.6 kB] Get:69 http://ftpmaster.internal/ubuntu disco/main amd64 hicolor-icon-theme all 0.17-2 [9976 B] Get:70 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-turbo8 amd64 2.0.0-0ubuntu2 [117 kB] Get:71 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:72 http://ftpmaster.internal/ubuntu disco/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:73 http://ftpmaster.internal/ubuntu disco/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:74 http://ftpmaster.internal/ubuntu disco/main amd64 libtiff5 amd64 4.0.10-3 [157 kB] Get:75 http://ftpmaster.internal/ubuntu disco/main amd64 libgdk-pixbuf2.0-common all 2.38.0+dfsg-6 [6052 B] Get:76 http://ftpmaster.internal/ubuntu disco/main amd64 libgdk-pixbuf2.0-0 amd64 2.38.0+dfsg-6 [170 kB] Get:77 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gtk-update-icon-cache amd64 3.24.2-2ubuntu2 [27.7 kB] Get:78 http://ftpmaster.internal/ubuntu disco/main amd64 libfreetype6 amd64 2.8.1-2ubuntu2 [335 kB] Get:79 http://ftpmaster.internal/ubuntu disco/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:80 http://ftpmaster.internal/ubuntu disco/main amd64 fontconfig-config all 2.13.0-5ubuntu3 [28.4 kB] Get:81 http://ftpmaster.internal/ubuntu disco/main amd64 libfontconfig1 amd64 2.13.0-5ubuntu3 [112 kB] Get:82 http://ftpmaster.internal/ubuntu disco/main amd64 libpixman-1-0 amd64 0.36.0-1 [229 kB] Get:83 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-render0 amd64 1.13.1-2 [14.8 kB] Get:84 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-shm0 amd64 1.13.1-2 [5548 B] Get:85 http://ftpmaster.internal/ubuntu disco/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:86 http://ftpmaster.internal/ubuntu disco/main amd64 libcairo2 amd64 1.16.0-1 [584 kB] Get:87 http://ftpmaster.internal/ubuntu disco/main amd64 libcroco3 amd64 0.6.12-2 [81.3 kB] Get:88 http://ftpmaster.internal/ubuntu disco/main amd64 fontconfig amd64 2.13.0-5ubuntu3 [170 kB] Get:89 http://ftpmaster.internal/ubuntu disco/main amd64 libthai-data all 0.1.28-1 [134 kB] Get:90 http://ftpmaster.internal/ubuntu disco/main amd64 libdatrie1 amd64 0.2.12-1 [18.3 kB] Get:91 http://ftpmaster.internal/ubuntu disco/main amd64 libthai0 amd64 0.1.28-1 [18.0 kB] Get:92 http://ftpmaster.internal/ubuntu disco/main amd64 libpango-1.0-0 amd64 1.42.4-5 [154 kB] Get:93 http://ftpmaster.internal/ubuntu disco/main amd64 libgraphite2-3 amd64 1.3.12-1 [73.6 kB] Get:94 http://ftpmaster.internal/ubuntu disco/main amd64 libharfbuzz0b amd64 2.1.1-1build1 [328 kB] Get:95 http://ftpmaster.internal/ubuntu disco/main amd64 libpangoft2-1.0-0 amd64 1.42.4-5 [35.3 kB] Get:96 http://ftpmaster.internal/ubuntu disco/main amd64 libpangocairo-1.0-0 amd64 1.42.4-5 [23.1 kB] Get:97 http://ftpmaster.internal/ubuntu disco/main amd64 librsvg2-2 amd64 2.44.10-1 [1245 kB] Get:98 http://ftpmaster.internal/ubuntu disco/main amd64 librsvg2-common amd64 2.44.10-1 [9112 B] Get:99 http://ftpmaster.internal/ubuntu disco/main amd64 humanity-icon-theme all 0.6.15 [1250 kB] Get:100 http://ftpmaster.internal/ubuntu disco/main amd64 ubuntu-mono all 16.10+18.10.20181005-0ubuntu1 [149 kB] Get:101 http://ftpmaster.internal/ubuntu disco/main amd64 adwaita-icon-theme all 3.30.0-0ubuntu1 [3253 kB] Get:102 http://ftpmaster.internal/ubuntu disco/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:103 http://ftpmaster.internal/ubuntu disco/main amd64 m4 amd64 1.4.18-2 [199 kB] Get:104 http://ftpmaster.internal/ubuntu disco/main amd64 autoconf all 2.69-11 [322 kB] Get:105 http://ftpmaster.internal/ubuntu disco/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:106 http://ftpmaster.internal/ubuntu disco/main amd64 automake all 1:1.16.1-4 [522 kB] Get:107 http://ftpmaster.internal/ubuntu disco/main amd64 autopoint all 0.19.8.1-9 [412 kB] Get:108 http://ftpmaster.internal/ubuntu disco/main amd64 libbison-dev amd64 2:3.2.2.dfsg-1 [343 kB] Get:109 http://ftpmaster.internal/ubuntu disco/main amd64 bison amd64 2:3.2.2.dfsg-1 [268 kB] Get:110 http://ftpmaster.internal/ubuntu disco/main amd64 java-common all 0.70 [6936 B] Get:111 http://ftpmaster.internal/ubuntu disco/main amd64 libavahi-common-data amd64 0.7-4ubuntu4 [21.4 kB] Get:112 http://ftpmaster.internal/ubuntu disco/main amd64 libavahi-common3 amd64 0.7-4ubuntu4 [21.5 kB] Get:113 http://ftpmaster.internal/ubuntu disco/main amd64 libavahi-client3 amd64 0.7-4ubuntu4 [25.2 kB] Get:114 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcups2 amd64 2.2.10-3 [212 kB] Get:115 http://ftpmaster.internal/ubuntu disco/main amd64 liblcms2-2 amd64 2.9-3 [139 kB] Get:116 http://ftpmaster.internal/ubuntu disco/main amd64 libnspr4 amd64 2:4.20-1ubuntu1 [107 kB] Get:117 http://ftpmaster.internal/ubuntu disco/main amd64 libnss3 amd64 2:3.39-1ubuntu1 [1139 kB] Get:118 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libasound2-data all 1.1.7-2ubuntu0.1 [38.7 kB] Get:119 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libasound2 amd64 1.1.7-2ubuntu0.1 [340 kB] Get:120 http://ftpmaster.internal/ubuntu disco/main amd64 libpcsclite1 amd64 1.8.24-1 [21.8 kB] Get:121 http://ftpmaster.internal/ubuntu disco/main amd64 libxi6 amd64 2:1.7.9-1 [29.2 kB] Get:122 http://ftpmaster.internal/ubuntu disco/main amd64 libxtst6 amd64 2:1.2.3-1 [12.8 kB] Get:123 http://ftpmaster.internal/ubuntu disco/main amd64 openjdk-11-jre-headless amd64 11.0.1+13-3ubuntu1 [36.9 MB] Get:124 http://ftpmaster.internal/ubuntu disco/main amd64 default-jre-headless amd64 2:1.11-70 [3340 B] Get:125 http://ftpmaster.internal/ubuntu disco/main amd64 ca-certificates-java all 20180516ubuntu1 [12.3 kB] Get:126 http://ftpmaster.internal/ubuntu disco/main amd64 dbus-user-session amd64 1.12.10-1ubuntu2 [9428 B] Get:127 http://ftpmaster.internal/ubuntu disco/main amd64 libdconf1 amd64 0.30.1-1 [36.0 kB] Get:128 http://ftpmaster.internal/ubuntu disco/main amd64 dconf-service amd64 0.30.1-1 [29.1 kB] Get:129 http://ftpmaster.internal/ubuntu disco/main amd64 dconf-gsettings-backend amd64 0.30.1-1 [21.8 kB] Get:130 http://ftpmaster.internal/ubuntu disco/main amd64 libtool all 2.4.6-6 [195 kB] Get:131 http://ftpmaster.internal/ubuntu disco/main amd64 dh-autoreconf all 19 [16.1 kB] Get:132 http://ftpmaster.internal/ubuntu disco/main amd64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:133 http://ftpmaster.internal/ubuntu disco/main amd64 libfile-stripnondeterminism-perl all 1.0.0-1 [13.9 kB] Get:134 http://ftpmaster.internal/ubuntu disco/main amd64 dh-strip-nondeterminism all 1.0.0-1 [5064 B] Get:135 http://ftpmaster.internal/ubuntu disco/main amd64 dwz amd64 0.12-3 [78.1 kB] Get:136 http://ftpmaster.internal/ubuntu disco/main amd64 gettext amd64 0.19.8.1-9 [896 kB] Get:137 http://ftpmaster.internal/ubuntu disco/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:138 http://ftpmaster.internal/ubuntu disco/main amd64 po-debconf all 1.0.21 [233 kB] Get:139 http://ftpmaster.internal/ubuntu disco/main amd64 debhelper all 11.5.3ubuntu1 [888 kB] Get:140 http://ftpmaster.internal/ubuntu disco/main amd64 libatk1.0-data all 2.30.0-1 [2996 B] Get:141 http://ftpmaster.internal/ubuntu disco/main amd64 libatk1.0-0 amd64 2.30.0-1 [44.2 kB] Get:142 http://ftpmaster.internal/ubuntu disco/main amd64 libatspi2.0-0 amd64 2.30.0-5 [59.8 kB] Get:143 http://ftpmaster.internal/ubuntu disco/main amd64 libatk-bridge2.0-0 amd64 2.30.0-2 [56.8 kB] Get:144 http://ftpmaster.internal/ubuntu disco/main amd64 libcairo-gobject2 amd64 1.16.0-1 [17.2 kB] Get:145 http://ftpmaster.internal/ubuntu disco/main amd64 libcolord2 amd64 1.4.3-3 [131 kB] Get:146 http://ftpmaster.internal/ubuntu disco/main amd64 libepoxy0 amd64 1.5.3-0.1 [188 kB] Get:147 http://ftpmaster.internal/ubuntu disco/main amd64 libjson-glib-1.0-common all 1.4.4-1 [3596 B] Get:148 http://ftpmaster.internal/ubuntu disco/main amd64 libjson-glib-1.0-0 amd64 1.4.4-1 [58.8 kB] Get:149 http://ftpmaster.internal/ubuntu disco/main amd64 libproxy1v5 amd64 0.4.15-3 [51.0 kB] Get:150 http://ftpmaster.internal/ubuntu disco/main amd64 glib-networking-common all 2.58.0-1 [3568 B] Get:151 http://ftpmaster.internal/ubuntu disco/main amd64 glib-networking-services amd64 2.58.0-1 [8896 B] Get:152 http://ftpmaster.internal/ubuntu disco/main amd64 gsettings-desktop-schemas all 3.28.1-1ubuntu1 [27.7 kB] Get:153 http://ftpmaster.internal/ubuntu disco/main amd64 glib-networking amd64 2.58.0-1 [48.0 kB] Get:154 http://ftpmaster.internal/ubuntu disco/main amd64 libsoup2.4-1 amd64 2.64.2-1 [240 kB] Get:155 http://ftpmaster.internal/ubuntu disco/main amd64 libsoup-gnome2.4-1 amd64 2.64.2-1 [5144 B] Get:156 http://ftpmaster.internal/ubuntu disco/main amd64 librest-0.7-0 amd64 0.8.1-1 [32.2 kB] Get:157 http://ftpmaster.internal/ubuntu disco/main amd64 libwayland-client0 amd64 1.16.0-1ubuntu2 [23.6 kB] Get:158 http://ftpmaster.internal/ubuntu disco/main amd64 libwayland-cursor0 amd64 1.16.0-1ubuntu2 [9960 B] Get:159 http://ftpmaster.internal/ubuntu disco/main amd64 libwayland-egl1 amd64 1.16.0-1ubuntu2 [5588 B] Get:160 http://ftpmaster.internal/ubuntu disco/main amd64 libxcomposite1 amd64 1:0.4.4-2 [6988 B] Get:161 http://ftpmaster.internal/ubuntu disco/main amd64 libxfixes3 amd64 1:5.0.3-1 [10.8 kB] Get:162 http://ftpmaster.internal/ubuntu disco/main amd64 libxcursor1 amd64 1:1.1.15-2 [19.8 kB] Get:163 http://ftpmaster.internal/ubuntu disco/main amd64 libxdamage1 amd64 1:1.1.4-3 [6934 B] Get:164 http://ftpmaster.internal/ubuntu disco/main amd64 libxinerama1 amd64 2:1.1.4-1 [7080 B] Get:165 http://ftpmaster.internal/ubuntu disco/main amd64 libxkbcommon0 amd64 0.8.2-1 [97.8 kB] Get:166 http://ftpmaster.internal/ubuntu disco/main amd64 libxrandr2 amd64 2:1.5.1-1 [18.1 kB] Get:167 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgtk-3-common all 3.24.2-2ubuntu2 [230 kB] Get:168 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgtk-3-0 amd64 3.24.2-2ubuntu2 [2536 kB] Get:169 http://ftpmaster.internal/ubuntu disco/main amd64 libglvnd0 amd64 1.1.0-1 [47.6 kB] Get:170 http://ftpmaster.internal/ubuntu disco/main amd64 libglapi-mesa amd64 18.2.6-1ubuntu1 [24.9 kB] Get:171 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-xcb1 amd64 2:1.6.7-1 [9204 B] Get:172 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-dri2-0 amd64 1.13.1-2 [6892 B] Get:173 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-dri3-0 amd64 1.13.1-2 [6488 B] Get:174 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-glx0 amd64 1.13.1-2 [21.9 kB] Get:175 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-present0 amd64 1.13.1-2 [5544 B] Get:176 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-sync1 amd64 1.13.1-2 [8832 B] Get:177 http://ftpmaster.internal/ubuntu disco/main amd64 libxshmfence1 amd64 1.3-1 [5028 B] Get:178 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm-amdgpu1 amd64 2.4.95-1 [17.4 kB] Get:179 http://ftpmaster.internal/ubuntu disco/main amd64 libpciaccess0 amd64 0.14-1 [17.9 kB] Get:180 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm-intel1 amd64 2.4.95-1 [60.0 kB] Get:181 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm-nouveau2 amd64 2.4.95-1 [16.5 kB] Get:182 http://ftpmaster.internal/ubuntu disco/main amd64 libdrm-radeon1 amd64 2.4.95-1 [21.4 kB] Get:183 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libllvm7 amd64 1:7.0.1~+rc3-2 [12.9 MB] Get:184 http://ftpmaster.internal/ubuntu disco/main amd64 libsensors4 amd64 1:3.4.0-4 [28.8 kB] Get:185 http://ftpmaster.internal/ubuntu disco/main amd64 libgl1-mesa-dri amd64 18.2.6-1ubuntu1 [6585 kB] Get:186 http://ftpmaster.internal/ubuntu disco/main amd64 libglx-mesa0 amd64 18.2.6-1ubuntu1 [136 kB] Get:187 http://ftpmaster.internal/ubuntu disco/main amd64 libglx0 amd64 1.1.0-1 [28.2 kB] Get:188 http://ftpmaster.internal/ubuntu disco/main amd64 libgl1 amd64 1.1.0-1 [88.7 kB] Get:189 http://ftpmaster.internal/ubuntu disco/main amd64 libgif7 amd64 5.1.4-3 [30.6 kB] Get:190 http://ftpmaster.internal/ubuntu disco/main amd64 openjdk-11-jre amd64 11.0.1+13-3ubuntu1 [34.4 kB] Get:191 http://ftpmaster.internal/ubuntu disco/main amd64 default-jre amd64 2:1.11-70 [1080 B] Get:192 http://ftpmaster.internal/ubuntu disco/main amd64 openjdk-11-jdk-headless amd64 11.0.1+13-3ubuntu1 [217 MB] Get:193 http://ftpmaster.internal/ubuntu disco/main amd64 default-jdk-headless amd64 2:1.11-70 [1144 B] Get:194 http://ftpmaster.internal/ubuntu disco/main amd64 openjdk-11-jdk amd64 11.0.1+13-3ubuntu1 [1892 kB] Get:195 http://ftpmaster.internal/ubuntu disco/main amd64 default-jdk amd64 2:1.11-70 [1096 B] Get:196 http://ftpmaster.internal/ubuntu disco/main amd64 fonts-lmodern all 2.004.5-5 [4532 kB] Get:197 http://ftpmaster.internal/ubuntu disco/main amd64 libgfortran5 amd64 8.2.0-12ubuntu1 [587 kB] Get:198 http://ftpmaster.internal/ubuntu disco/main amd64 libgfortran-8-dev amd64 8.2.0-12ubuntu1 [621 kB] Get:199 http://ftpmaster.internal/ubuntu disco/main amd64 gfortran-8 amd64 8.2.0-12ubuntu1 [7645 kB] Get:200 http://ftpmaster.internal/ubuntu disco/main amd64 gfortran amd64 4:8.2.0-2ubuntu2 [1368 B] Get:201 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gir1.2-freedesktop amd64 1.58.2-1 [9056 B] Get:202 http://ftpmaster.internal/ubuntu disco/main amd64 gir1.2-harfbuzz-0.0 amd64 2.1.1-1build1 [20.6 kB] Get:203 http://ftpmaster.internal/ubuntu disco/main amd64 libxft2 amd64 2.3.2-2 [38.5 kB] Get:204 http://ftpmaster.internal/ubuntu disco/main amd64 libpangoxft-1.0-0 amd64 1.42.4-5 [17.4 kB] Get:205 http://ftpmaster.internal/ubuntu disco/main amd64 gir1.2-pango-1.0 amd64 1.42.4-5 [23.0 kB] Get:206 http://ftpmaster.internal/ubuntu disco/main amd64 icu-devtools amd64 63.1-5 [183 kB] Get:207 http://ftpmaster.internal/ubuntu disco/main amd64 libroken18-heimdal amd64 7.5.0+dfsg-2.1 [41.4 kB] Get:208 http://ftpmaster.internal/ubuntu disco/main amd64 libasn1-8-heimdal amd64 7.5.0+dfsg-2.1 [182 kB] Get:209 http://ftpmaster.internal/ubuntu disco/main amd64 libblas3 amd64 3.8.0-2 [138 kB] Get:210 http://ftpmaster.internal/ubuntu disco/main amd64 libblas-dev amd64 3.8.0-2 [141 kB] Get:211 http://ftpmaster.internal/ubuntu disco/main amd64 libbrotli1 amd64 1.0.7-1 [268 kB] Get:212 http://ftpmaster.internal/ubuntu disco/main amd64 libbz2-dev amd64 1.0.6-9 [30.2 kB] Get:213 http://ftpmaster.internal/ubuntu disco/main amd64 liblzo2-2 amd64 2.10-0.1 [49.9 kB] Get:214 http://ftpmaster.internal/ubuntu disco/main amd64 libcairo-script-interpreter2 amd64 1.16.0-1 [53.7 kB] Get:215 http://ftpmaster.internal/ubuntu disco/main amd64 libexpat1-dev amd64 2.2.6-1 [134 kB] Get:216 http://ftpmaster.internal/ubuntu disco/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-0ubuntu2 [176 kB] Get:217 http://ftpmaster.internal/ubuntu disco/main amd64 libpng-dev amd64 1.6.34-2 [177 kB] Get:218 http://ftpmaster.internal/ubuntu disco/main amd64 libfreetype6-dev amd64 2.8.1-2ubuntu2 [2539 kB] Get:219 http://ftpmaster.internal/ubuntu disco/main amd64 uuid-dev amd64 2.32-0.1ubuntu2 [33.6 kB] Get:220 http://ftpmaster.internal/ubuntu disco/main amd64 pkg-config amd64 0.29.1-0ubuntu2 [45.0 kB] Get:221 http://ftpmaster.internal/ubuntu disco/main amd64 libfontconfig1-dev amd64 2.13.0-5ubuntu3 [709 kB] Get:222 http://ftpmaster.internal/ubuntu disco/main amd64 xorg-sgml-doctools all 1:1.11-1 [12.9 kB] Get:223 http://ftpmaster.internal/ubuntu disco/main amd64 x11proto-dev all 2018.4-4 [251 kB] Get:224 http://ftpmaster.internal/ubuntu disco/main amd64 x11proto-core-dev all 2018.4-4 [2620 B] Get:225 http://ftpmaster.internal/ubuntu disco/main amd64 libxau-dev amd64 1:1.0.8-1 [11.1 kB] Get:226 http://ftpmaster.internal/ubuntu disco/main amd64 libxdmcp-dev amd64 1:1.1.2-3 [25.1 kB] Get:227 http://ftpmaster.internal/ubuntu disco/main amd64 xtrans-dev all 1.3.5-1 [70.5 kB] Get:228 http://ftpmaster.internal/ubuntu disco/main amd64 libpthread-stubs0-dev amd64 0.3-4 [4068 B] Get:229 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb1-dev amd64 1.13.1-2 [79.9 kB] Get:230 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-dev amd64 2:1.6.7-1 [644 kB] Get:231 http://ftpmaster.internal/ubuntu disco/main amd64 libxrender-dev amd64 1:0.9.10-1 [24.9 kB] Get:232 http://ftpmaster.internal/ubuntu disco/main amd64 x11proto-xext-dev all 2018.4-4 [2620 B] Get:233 http://ftpmaster.internal/ubuntu disco/main amd64 libxext-dev amd64 2:1.3.3-1 [82.1 kB] Get:234 http://ftpmaster.internal/ubuntu disco/main amd64 libice-dev amd64 2:1.0.9-2 [46.8 kB] Get:235 http://ftpmaster.internal/ubuntu disco/main amd64 libsm-dev amd64 2:1.2.2-1 [16.2 kB] Get:236 http://ftpmaster.internal/ubuntu disco/main amd64 libpixman-1-dev amd64 0.36.0-1 [245 kB] Get:237 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-render0-dev amd64 1.13.1-2 [18.4 kB] Get:238 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-shm0-dev amd64 1.13.1-2 [6656 B] Get:239 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-bin amd64 2.58.1-2 [71.5 kB] Get:240 http://ftpmaster.internal/ubuntu disco/main amd64 python3-lib2to3 all 3.7.1-1ubuntu4 [74.2 kB] Get:241 http://ftpmaster.internal/ubuntu disco/main amd64 python3-distutils all 3.7.1-1ubuntu4 [139 kB] Get:242 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-dev-bin amd64 2.58.1-2 [104 kB] Get:243 http://ftpmaster.internal/ubuntu disco/main amd64 libpcre16-3 amd64 2:8.39-11 [149 kB] Get:244 http://ftpmaster.internal/ubuntu disco/main amd64 libpcre32-3 amd64 2:8.39-11 [140 kB] Get:245 http://ftpmaster.internal/ubuntu disco/main amd64 libpcrecpp0v5 amd64 2:8.39-11 [15.7 kB] Get:246 http://ftpmaster.internal/ubuntu disco/main amd64 libpcre3-dev amd64 2:8.39-11 [540 kB] Get:247 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-dev amd64 2.58.1-2 [1394 kB] Get:248 http://ftpmaster.internal/ubuntu disco/main amd64 libcairo2-dev amd64 1.16.0-1 [627 kB] Get:249 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcupsimage2 amd64 2.2.10-3 [18.4 kB] Get:250 http://ftpmaster.internal/ubuntu disco/main amd64 libheimbase1-heimdal amd64 7.5.0+dfsg-2.1 [29.4 kB] Get:251 http://ftpmaster.internal/ubuntu disco/main amd64 libhcrypto4-heimdal amd64 7.5.0+dfsg-2.1 [86.7 kB] Get:252 http://ftpmaster.internal/ubuntu disco/main amd64 libwind0-heimdal amd64 7.5.0+dfsg-2.1 [47.8 kB] Get:253 http://ftpmaster.internal/ubuntu disco/main amd64 libhx509-5-heimdal amd64 7.5.0+dfsg-2.1 [107 kB] Get:254 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5-26-heimdal amd64 7.5.0+dfsg-2.1 [206 kB] Get:255 http://ftpmaster.internal/ubuntu disco/main amd64 libheimntlm0-heimdal amd64 7.5.0+dfsg-2.1 [14.8 kB] Get:256 http://ftpmaster.internal/ubuntu disco/main amd64 libgssapi3-heimdal amd64 7.5.0+dfsg-2.1 [96.4 kB] Get:257 http://ftpmaster.internal/ubuntu disco/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3ubuntu2 [14.8 kB] Get:258 http://ftpmaster.internal/ubuntu disco/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3ubuntu2 [49.2 kB] Get:259 http://ftpmaster.internal/ubuntu disco/main amd64 libldap-common all 2.4.46+dfsg-5ubuntu3 [16.0 kB] Get:260 http://ftpmaster.internal/ubuntu disco/main amd64 libldap-2.4-2 amd64 2.4.46+dfsg-5ubuntu3 [154 kB] Get:261 http://ftpmaster.internal/ubuntu disco/main amd64 libnghttp2-14 amd64 1.35.1-1 [78.9 kB] Get:262 http://ftpmaster.internal/ubuntu disco/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [54.5 kB] Get:263 http://ftpmaster.internal/ubuntu disco/main amd64 libcurl4 amd64 7.61.0-1ubuntu2.2 [217 kB] Get:264 http://ftpmaster.internal/ubuntu disco/main amd64 libcurl4-openssl-dev amd64 7.61.0-1ubuntu2.2 [298 kB] Get:265 http://ftpmaster.internal/ubuntu disco/main amd64 libfontenc1 amd64 1:1.1.3-1 [13.9 kB] Get:266 http://ftpmaster.internal/ubuntu disco/main amd64 libfribidi-dev amd64 1.0.5-3 [62.0 kB] Get:267 http://ftpmaster.internal/ubuntu disco/main amd64 libgraphite2-dev amd64 1.3.12-1 [14.7 kB] Get:268 http://ftpmaster.internal/ubuntu disco/main amd64 libijs-0.35 amd64 0.35-13 [15.5 kB] Get:269 http://ftpmaster.internal/ubuntu disco/main amd64 libjbig2dec0 amd64 0.15-2 [58.5 kB] Get:270 http://ftpmaster.internal/ubuntu disco/main amd64 libpaper1 amd64 1.1.26 [12.9 kB] Get:271 http://ftpmaster.internal/ubuntu disco/main amd64 libgs9-common all 9.26~dfsg+0-0ubuntu3 [5092 kB] Get:272 http://ftpmaster.internal/ubuntu disco/main amd64 libgs9 amd64 9.26~dfsg+0-0ubuntu3 [2390 kB] Get:273 http://ftpmaster.internal/ubuntu disco/main amd64 libharfbuzz-icu0 amd64 2.1.1-1build1 [5420 B] Get:274 http://ftpmaster.internal/ubuntu disco/main amd64 libharfbuzz-gobject0 amd64 2.1.1-1build1 [13.9 kB] Get:275 http://ftpmaster.internal/ubuntu disco/main amd64 libicu-dev amd64 63.1-5 [9178 kB] Get:276 http://ftpmaster.internal/ubuntu disco/main amd64 libharfbuzz-dev amd64 2.1.1-1build1 [429 kB] Get:277 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-turbo8-dev amd64 2.0.0-0ubuntu2 [238 kB] Get:278 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg8-dev amd64 8c-2ubuntu8 [1552 B] Get:279 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-dev amd64 8c-2ubuntu8 [1546 B] Get:280 http://ftpmaster.internal/ubuntu disco/main amd64 libkpathsea6 amd64 2018.20181214.49410-1 [56.4 kB] Get:281 http://ftpmaster.internal/ubuntu disco/main amd64 liblapack3 amd64 3.8.0-2 [2099 kB] Get:282 http://ftpmaster.internal/ubuntu disco/main amd64 liblapack-dev amd64 3.8.0-2 [2127 kB] Get:283 http://ftpmaster.internal/ubuntu disco/universe amd64 libmime-charset-perl all 1.012.2-1 [30.9 kB] Get:284 http://ftpmaster.internal/ubuntu disco/main amd64 libncurses-dev amd64 6.1+20180210-4ubuntu1 [333 kB] Get:285 http://ftpmaster.internal/ubuntu disco/main amd64 libncurses5-dev amd64 6.1+20180210-4ubuntu1 [972 B] Get:286 http://ftpmaster.internal/ubuntu disco/main amd64 libxft-dev amd64 2.3.2-2 [48.6 kB] Get:287 http://ftpmaster.internal/ubuntu disco/main amd64 pango1.0-tools amd64 1.42.4-5 [23.7 kB] Get:288 http://ftpmaster.internal/ubuntu disco/main amd64 libpango1.0-dev amd64 1.42.4-5 [106 kB] Get:289 http://ftpmaster.internal/ubuntu disco/main amd64 libpaper-utils amd64 1.1.26 [8320 B] Get:290 http://ftpmaster.internal/ubuntu disco/main amd64 libpotrace0 amd64 1.15-1 [17.5 kB] Get:291 http://ftpmaster.internal/ubuntu disco/main amd64 libptexenc1 amd64 2018.20181214.49410-1 [35.2 kB] Get:292 http://ftpmaster.internal/ubuntu disco/main amd64 libreadline-dev amd64 7.0-5 [133 kB] Get:293 http://ftpmaster.internal/ubuntu disco/universe amd64 libsombok3 amd64 2.4.0-2 [26.9 kB] Get:294 http://ftpmaster.internal/ubuntu disco/main amd64 libsynctex2 amd64 2018.20181214.49410-1 [54.4 kB] Get:295 http://ftpmaster.internal/ubuntu disco/main amd64 libtcl8.6 amd64 8.6.9+dfsg-1 [898 kB] Get:296 http://ftpmaster.internal/ubuntu disco/main amd64 libteckit0 amd64 2.5.8+ds2-5ubuntu1 [317 kB] Get:297 http://ftpmaster.internal/ubuntu disco/main amd64 libtexlua52 amd64 2018.20181214.49410-1 [90.5 kB] Get:298 http://ftpmaster.internal/ubuntu disco/main amd64 libtexlua53 amd64 2018.20181214.49410-1 [104 kB] Get:299 http://ftpmaster.internal/ubuntu disco/main amd64 libtexluajit2 amd64 2018.20181214.49410-1 [234 kB] Get:300 http://ftpmaster.internal/ubuntu disco/universe amd64 libtext-unidecode-perl all 1.30-1 [99.0 kB] Get:301 http://ftpmaster.internal/ubuntu disco/main amd64 libjbig-dev amd64 2.1-3.1build1 [25.2 kB] Get:302 http://ftpmaster.internal/ubuntu disco/main amd64 liblzma-dev amd64 5.2.2-1.3 [145 kB] Get:303 http://ftpmaster.internal/ubuntu disco/main amd64 libtiffxx5 amd64 4.0.10-3 [5804 B] Get:304 http://ftpmaster.internal/ubuntu disco/main amd64 libtiff-dev amd64 4.0.10-3 [277 kB] Get:305 http://ftpmaster.internal/ubuntu disco/main amd64 libtiff5-dev amd64 4.0.10-3 [2232 B] Get:306 http://ftpmaster.internal/ubuntu disco/main amd64 libxss1 amd64 1:1.2.3-1 [8140 B] Get:307 http://ftpmaster.internal/ubuntu disco/main amd64 libtk8.6 amd64 8.6.9-1 [709 kB] Get:308 http://ftpmaster.internal/ubuntu disco/universe amd64 libunicode-linebreak-perl amd64 0.0.20170401-1build1 [97.0 kB] Get:309 http://ftpmaster.internal/ubuntu disco/main amd64 libunwind8 amd64 1.2.1-8 [47.5 kB] Get:310 http://ftpmaster.internal/ubuntu disco/main amd64 libwoff1 amd64 1.0.2-1build1 [42.1 kB] Get:311 http://ftpmaster.internal/ubuntu disco/main amd64 libxt6 amd64 1:1.1.5-1 [160 kB] Get:312 http://ftpmaster.internal/ubuntu disco/main amd64 libxmu6 amd64 2:1.1.2-2 [46.0 kB] Get:313 http://ftpmaster.internal/ubuntu disco/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:314 http://ftpmaster.internal/ubuntu disco/main amd64 libxaw7 amd64 2:1.0.13-1 [173 kB] Get:315 http://ftpmaster.internal/ubuntu disco/main amd64 libxfont2 amd64 1:2.0.3-1 [91.7 kB] Get:316 http://ftpmaster.internal/ubuntu disco/main amd64 libxkbfile1 amd64 1:1.0.9-2 [64.6 kB] Get:317 http://ftpmaster.internal/ubuntu disco/main amd64 libxml-namespacesupport-perl all 1.12-1 [13.2 kB] Get:318 http://ftpmaster.internal/ubuntu disco/main amd64 libxml-sax-base-perl all 1.09-1 [18.8 kB] Get:319 http://ftpmaster.internal/ubuntu disco/main amd64 libxml-sax-perl all 1.00+dfsg-1.1~build1 [56.1 kB] Get:320 http://ftpmaster.internal/ubuntu disco/main amd64 libxml-libxml-perl amd64 2.0132+dfsg-2build1 [319 kB] Get:321 http://ftpmaster.internal/ubuntu disco/main amd64 x11proto-scrnsaver-dev all 2018.4-4 [2628 B] Get:322 http://ftpmaster.internal/ubuntu disco/main amd64 libxss-dev amd64 1:1.2.3-1 [11.9 kB] Get:323 http://ftpmaster.internal/ubuntu disco/main amd64 libxt-dev amd64 1:1.1.5-1 [395 kB] Get:324 http://ftpmaster.internal/ubuntu disco/main amd64 libxxhash0 amd64 0.6.5-2 [7180 B] Get:325 http://ftpmaster.internal/ubuntu disco/main amd64 libzzip-0-13 amd64 0.13.62-3.1ubuntu1 [26.0 kB] Get:326 http://ftpmaster.internal/ubuntu disco/universe amd64 mpack amd64 1.6-8.2 [35.5 kB] Get:327 http://ftpmaster.internal/ubuntu disco/main amd64 preview-latex-style all 11.91-1ubuntu1 [185 kB] Get:328 http://ftpmaster.internal/ubuntu disco/main amd64 t1utils amd64 1.41-2 [56.0 kB] Get:329 http://ftpmaster.internal/ubuntu disco/main amd64 tcl8.6 amd64 8.6.9+dfsg-1 [14.4 kB] Get:330 http://ftpmaster.internal/ubuntu disco/main amd64 tcl8.6-dev amd64 8.6.9+dfsg-1 [892 kB] Get:331 http://ftpmaster.internal/ubuntu disco/universe amd64 texinfo amd64 6.5.0.dfsg.1-4build1 [848 kB] Get:332 http://ftpmaster.internal/ubuntu disco/main amd64 texlive-binaries amd64 2018.20181214.49410-1 [11.5 MB] Get:333 http://ftpmaster.internal/ubuntu disco/main amd64 xdg-utils all 1.1.3-1ubuntu2 [60.5 kB] Get:334 http://ftpmaster.internal/ubuntu disco/main amd64 texlive-base all 2018.20181214-1 [19.4 MB] Get:335 http://ftpmaster.internal/ubuntu disco/main amd64 texlive-latex-base all 2018.20181214-1 [956 kB] Get:336 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-extra-utils all 2018.20181214-1 [37.6 MB] Get:337 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-fonts-extra all 2018.20181214-1 [406 MB] Get:338 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-fonts-recommended all 2018.20181214-1 [5265 kB] Get:339 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-plain-generic all 2018.20181214-1 [24.2 MB] Get:340 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-generic-recommended all 2018.20181214-1 [15.6 kB] Get:341 http://ftpmaster.internal/ubuntu disco/main amd64 texlive-latex-recommended all 2018.20181214-1 [15.3 MB] Get:342 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-pictures all 2018.20181214-1 [4124 kB] Get:343 http://ftpmaster.internal/ubuntu disco/universe amd64 texlive-latex-extra all 2018.20181214-1 [11.8 MB] Get:344 http://ftpmaster.internal/ubuntu disco/universe amd64 tk8.6 amd64 8.6.9-1 [12.3 kB] Get:345 http://ftpmaster.internal/ubuntu disco/universe amd64 tk8.6-dev amd64 8.6.9-1 [697 kB] Get:346 http://ftpmaster.internal/ubuntu disco/main amd64 x11-xkb-utils amd64 7.7+4 [160 kB] Get:347 http://ftpmaster.internal/ubuntu disco/main amd64 xfonts-encodings all 1:1.0.4-2 [573 kB] Get:348 http://ftpmaster.internal/ubuntu disco/main amd64 xfonts-utils amd64 1:7.7+6 [91.5 kB] Get:349 http://ftpmaster.internal/ubuntu disco/main amd64 xfonts-base all 1:1.0.4+nmu1 [5914 kB] Get:350 http://ftpmaster.internal/ubuntu disco/main amd64 xserver-common all 2:1.20.3-1ubuntu1 [26.6 kB] Get:351 http://ftpmaster.internal/ubuntu disco/universe amd64 xvfb amd64 2:1.20.3-1ubuntu1 [777 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 921 MB in 51s (17.9 MB/s) Selecting previously unselected package libpython3.7-minimal:amd64. (Reading database ... 12668 files and directories currently installed.) Preparing to unpack .../libpython3.7-minimal_3.7.2~rc1-1_amd64.deb ... Unpacking libpython3.7-minimal:amd64 (3.7.2~rc1-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.6-1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-1) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../python3.7-minimal_3.7.2~rc1-1_amd64.deb ... Unpacking python3.7-minimal (3.7.2~rc1-1) ... Setting up libpython3.7-minimal:amd64 (3.7.2~rc1-1) ... Setting up libexpat1:amd64 (2.2.6-1) ... Setting up python3.7-minimal (3.7.2~rc1-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 12917 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.7.1-1ubuntu1_amd64.deb ... Unpacking python3-minimal (3.7.1-1ubuntu1) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.60ubuntu1_all.deb ... Unpacking mime-support (3.60ubuntu1) ... Selecting previously unselected package libmpdec2:amd64. Preparing to unpack .../2-libmpdec2_2.4.2-2_amd64.deb ... Unpacking libmpdec2:amd64 (2.4.2-2) ... Selecting previously unselected package libpython3.7-stdlib:amd64. Preparing to unpack .../3-libpython3.7-stdlib_3.7.2~rc1-1_amd64.deb ... Unpacking libpython3.7-stdlib:amd64 (3.7.2~rc1-1) ... Selecting previously unselected package python3.7. Preparing to unpack .../4-python3.7_3.7.2~rc1-1_amd64.deb ... Unpacking python3.7 (3.7.2~rc1-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../5-libpython3-stdlib_3.7.1-1ubuntu1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.7.1-1ubuntu1) ... Setting up python3-minimal (3.7.1-1ubuntu1) ... Selecting previously unselected package python3. (Reading database ... 13351 files and directories currently installed.) Preparing to unpack .../00-python3_3.7.1-1ubuntu1_amd64.deb ... Unpacking python3 (3.7.1-1ubuntu1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../01-libxau6_1%3a1.0.8-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../02-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../03-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../04-libxcb1_1.13.1-2_amd64.deb ... Unpacking libxcb1:amd64 (1.13.1-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../05-libx11-data_2%3a1.6.7-1_all.deb ... Unpacking libx11-data (2:1.6.7-1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../06-libx11-6_2%3a1.6.7-1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.7-1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../07-libxext6_2%3a1.3.3-1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../08-bsdmainutils_11.1.2ubuntu2_amd64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package groff-base. Preparing to unpack .../09-groff-base_1.22.3-10_amd64.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.0-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-2) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.8.4-3_amd64.deb ... Unpacking man-db (2.8.4-3) ... Selecting previously unselected package x11-common. Preparing to unpack .../12-x11-common_1%3a7.7+19ubuntu8_all.deb ... dpkg-query: no packages found matching nux-tools Unpacking x11-common (1:7.7+19ubuntu8) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../13-libice6_2%3a1.0.9-2_amd64.deb ... Unpacking libice6:amd64 (2:1.0.9-2) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../14-libsm6_2%3a1.2.2-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.2-1) ... Selecting previously unselected package libxxf86vm1:amd64. Preparing to unpack .../15-libxxf86vm1_1%3a1.1.4-1_amd64.deb ... Unpacking libxxf86vm1:amd64 (1:1.1.4-1) ... Selecting previously unselected package poppler-data. Preparing to unpack .../16-poppler-data_0.4.9-2_all.deb ... Unpacking poppler-data (0.4.9-2) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../17-libpython2.7-minimal_2.7.15-5_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.15-5) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../18-python2.7-minimal_2.7.15-5_amd64.deb ... Unpacking python2.7-minimal (2.7.15-5) ... Selecting previously unselected package python2-minimal. Preparing to unpack .../19-python2-minimal_2.7.15-3_amd64.deb ... Unpacking python2-minimal (2.7.15-3) ... Selecting previously unselected package python-minimal. Preparing to unpack .../20-python-minimal_2.7.15-3_amd64.deb ... Unpacking python-minimal (2.7.15-3) ... Selecting previously unselected package libpython2.7-stdlib:amd64. Preparing to unpack .../21-libpython2.7-stdlib_2.7.15-5_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.15-5) ... Selecting previously unselected package python2.7. Preparing to unpack .../22-python2.7_2.7.15-5_amd64.deb ... Unpacking python2.7 (2.7.15-5) ... Selecting previously unselected package libpython2-stdlib:amd64. Preparing to unpack .../23-libpython2-stdlib_2.7.15-3_amd64.deb ... Unpacking libpython2-stdlib:amd64 (2.7.15-3) ... Selecting previously unselected package libpython-stdlib:amd64. Preparing to unpack .../24-libpython-stdlib_2.7.15-3_amd64.deb ... Unpacking libpython-stdlib:amd64 (2.7.15-3) ... Setting up libpython2.7-minimal:amd64 (2.7.15-5) ... Setting up python2.7-minimal (2.7.15-5) ... Setting up python2-minimal (2.7.15-3) ... Selecting previously unselected package python2. (Reading database ... 15541 files and directories currently installed.) Preparing to unpack .../python2_2.7.15-3_amd64.deb ... Unpacking python2 (2.7.15-3) ... Setting up python-minimal (2.7.15-3) ... Selecting previously unselected package python. (Reading database ... 15573 files and directories currently installed.) Preparing to unpack .../000-python_2.7.15-3_amd64.deb ... Unpacking python (2.7.15-3) ... Selecting previously unselected package ucf. Preparing to unpack .../001-ucf_3.0038_all.deb ... Moving old data out of the way Unpacking ucf (3.0038) ... Selecting previously unselected package tex-common. Preparing to unpack .../002-tex-common_6.10_all.deb ... Unpacking tex-common (6.10) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../003-libdbus-1-3_1.12.10-1ubuntu2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.12.10-1ubuntu2) ... Selecting previously unselected package dbus. Preparing to unpack .../004-dbus_1.12.10-1ubuntu2_amd64.deb ... Unpacking dbus (1.12.10-1ubuntu2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.34-2_amd64.deb ... Unpacking libmagic-mgc (1:5.34-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../006-libmagic1_1%3a5.34-2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.34-2) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.34-2_amd64.deb ... Unpacking file (1:5.34-2) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../008-libglib2.0-0_2.58.1-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.1-2) ... Selecting previously unselected package libgirepository-1.0-1:amd64. Preparing to unpack .../009-libgirepository-1.0-1_1.58.2-1_amd64.deb ... Unpacking libgirepository-1.0-1:amd64 (1.58.2-1) ... Selecting previously unselected package gir1.2-glib-2.0:amd64. Preparing to unpack .../010-gir1.2-glib-2.0_1.58.2-1_amd64.deb ... Unpacking gir1.2-glib-2.0:amd64 (1.58.2-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../011-libelf1_0.175-1_amd64.deb ... Unpacking libelf1:amd64 (0.175-1) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../012-libfribidi0_1.0.5-3_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.5-3) ... Selecting previously unselected package libglib2.0-data. Preparing to unpack .../013-libglib2.0-data_2.58.1-2_all.deb ... Unpacking libglib2.0-data (2.58.1-2) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../014-libicu63_63.1-5_amd64.deb ... Unpacking libicu63:amd64 (63.1-5) ... Selecting previously unselected package libpam-systemd:amd64. Preparing to unpack .../015-libpam-systemd_239-7ubuntu15_amd64.deb ... Unpacking libpam-systemd:amd64 (239-7ubuntu15) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../016-libxml2_2.9.4+dfsg1-7ubuntu3_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7ubuntu3) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../017-shared-mime-info_1.10-1_amd64.deb ... Unpacking shared-mime-info (1.10-1) ... Selecting previously unselected package xkb-data. Preparing to unpack .../018-xkb-data_2.23.1-1ubuntu1.18.10.1_all.deb ... Unpacking xkb-data (2.23.1-1ubuntu1.18.10.1) ... Selecting previously unselected package bash-completion. Preparing to unpack .../019-bash-completion_1%3a2.8-1ubuntu1_all.deb ... Unpacking bash-completion (1:2.8-1ubuntu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../020-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../021-libdrm-common_2.4.95-1_all.deb ... Unpacking libdrm-common (2.4.95-1) ... Selecting previously unselected package libdrm2:amd64. Preparing to unpack .../022-libdrm2_2.4.95-1_amd64.deb ... Unpacking libdrm2:amd64 (2.4.95-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../023-libedit2_3.1-20181209-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20181209-1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../024-libkrb5support0_1.16.1-1ubuntu1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.16.1-1ubuntu1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../025-libk5crypto3_1.16.1-1ubuntu1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.16.1-1ubuntu1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../026-libkeyutils1_1.5.9-9.3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.5.9-9.3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../027-libkrb5-3_1.16.1-1ubuntu1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.16.1-1ubuntu1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../028-libgssapi-krb5-2_1.16.1-1ubuntu1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.16.1-1ubuntu1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../029-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package libxmuu1:amd64. Preparing to unpack .../030-libxmuu1_2%3a1.1.2-2_amd64.deb ... Unpacking libxmuu1:amd64 (2:1.1.2-2) ... Selecting previously unselected package xauth. Preparing to unpack .../031-xauth_1%3a1.0.10-1_amd64.deb ... Unpacking xauth (1:1.0.10-1) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../032-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package libjpeg-turbo8:amd64. Preparing to unpack .../033-libjpeg-turbo8_2.0.0-0ubuntu2_amd64.deb ... Unpacking libjpeg-turbo8:amd64 (2.0.0-0ubuntu2) ... Selecting previously unselected package libjpeg8:amd64. Preparing to unpack .../034-libjpeg8_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../035-libjbig0_2.1-3.1build1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1build1) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../036-libwebp6_0.6.1-2_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../037-libtiff5_4.0.10-3_amd64.deb ... Unpacking libtiff5:amd64 (4.0.10-3) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../038-libgdk-pixbuf2.0-common_2.38.0+dfsg-6_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.38.0+dfsg-6) ... Selecting previously unselected package libgdk-pixbuf2.0-0:amd64. Preparing to unpack .../039-libgdk-pixbuf2.0-0_2.38.0+dfsg-6_amd64.deb ... Unpacking libgdk-pixbuf2.0-0:amd64 (2.38.0+dfsg-6) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../040-gtk-update-icon-cache_3.24.2-2ubuntu2_amd64.deb ... No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed. Unpacking gtk-update-icon-cache (3.24.2-2ubuntu2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../041-libfreetype6_2.8.1-2ubuntu2_amd64.deb ... Unpacking libfreetype6:amd64 (2.8.1-2ubuntu2) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../042-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../043-fontconfig-config_2.13.0-5ubuntu3_all.deb ... Unpacking fontconfig-config (2.13.0-5ubuntu3) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../044-libfontconfig1_2.13.0-5ubuntu3_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.0-5ubuntu3) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../045-libpixman-1-0_0.36.0-1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.36.0-1) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../046-libxcb-render0_1.13.1-2_amd64.deb ... Unpacking libxcb-render0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../047-libxcb-shm0_1.13.1-2_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.13.1-2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../048-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../049-libcairo2_1.16.0-1_amd64.deb ... Unpacking libcairo2:amd64 (1.16.0-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../050-libcroco3_0.6.12-2_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-2) ... Selecting previously unselected package fontconfig. Preparing to unpack .../051-fontconfig_2.13.0-5ubuntu3_amd64.deb ... Unpacking fontconfig (2.13.0-5ubuntu3) ... Selecting previously unselected package libthai-data. Preparing to unpack .../052-libthai-data_0.1.28-1_all.deb ... Unpacking libthai-data (0.1.28-1) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../053-libdatrie1_0.2.12-1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.12-1) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../054-libthai0_0.1.28-1_amd64.deb ... Unpacking libthai0:amd64 (0.1.28-1) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../055-libpango-1.0-0_1.42.4-5_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.42.4-5) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../056-libgraphite2-3_1.3.12-1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.12-1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../057-libharfbuzz0b_2.1.1-1build1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (2.1.1-1build1) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../058-libpangoft2-1.0-0_1.42.4-5_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.42.4-5) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../059-libpangocairo-1.0-0_1.42.4-5_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.42.4-5) ... Selecting previously unselected package librsvg2-2:amd64. Preparing to unpack .../060-librsvg2-2_2.44.10-1_amd64.deb ... Unpacking librsvg2-2:amd64 (2.44.10-1) ... Selecting previously unselected package librsvg2-common:amd64. Preparing to unpack .../061-librsvg2-common_2.44.10-1_amd64.deb ... Unpacking librsvg2-common:amd64 (2.44.10-1) ... Selecting previously unselected package humanity-icon-theme. Preparing to unpack .../062-humanity-icon-theme_0.6.15_all.deb ... Unpacking humanity-icon-theme (0.6.15) ... Selecting previously unselected package ubuntu-mono. Preparing to unpack .../063-ubuntu-mono_16.10+18.10.20181005-0ubuntu1_all.deb ... Unpacking ubuntu-mono (16.10+18.10.20181005-0ubuntu1) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../064-adwaita-icon-theme_3.30.0-0ubuntu1_all.deb ... Unpacking adwaita-icon-theme (3.30.0-0ubuntu1) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../065-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../066-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../067-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../068-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../069-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../070-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libbison-dev:amd64. Preparing to unpack .../071-libbison-dev_2%3a3.2.2.dfsg-1_amd64.deb ... Unpacking libbison-dev:amd64 (2:3.2.2.dfsg-1) ... Selecting previously unselected package bison. Preparing to unpack .../072-bison_2%3a3.2.2.dfsg-1_amd64.deb ... Unpacking bison (2:3.2.2.dfsg-1) ... Selecting previously unselected package java-common. Preparing to unpack .../073-java-common_0.70_all.deb ... Unpacking java-common (0.70) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../074-libavahi-common-data_0.7-4ubuntu4_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.7-4ubuntu4) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../075-libavahi-common3_0.7-4ubuntu4_amd64.deb ... Unpacking libavahi-common3:amd64 (0.7-4ubuntu4) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../076-libavahi-client3_0.7-4ubuntu4_amd64.deb ... Unpacking libavahi-client3:amd64 (0.7-4ubuntu4) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../077-libcups2_2.2.10-3_amd64.deb ... Unpacking libcups2:amd64 (2.2.10-3) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../078-liblcms2-2_2.9-3_amd64.deb ... Unpacking liblcms2-2:amd64 (2.9-3) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../079-libnspr4_2%3a4.20-1ubuntu1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.20-1ubuntu1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../080-libnss3_2%3a3.39-1ubuntu1_amd64.deb ... Unpacking libnss3:amd64 (2:3.39-1ubuntu1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../081-libasound2-data_1.1.7-2ubuntu0.1_all.deb ... Unpacking libasound2-data (1.1.7-2ubuntu0.1) ... Selecting previously unselected package libasound2:amd64. Preparing to unpack .../082-libasound2_1.1.7-2ubuntu0.1_amd64.deb ... Unpacking libasound2:amd64 (1.1.7-2ubuntu0.1) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../083-libpcsclite1_1.8.24-1_amd64.deb ... Unpacking libpcsclite1:amd64 (1.8.24-1) ... Selecting previously unselected package libxi6:amd64. Preparing to unpack .../084-libxi6_2%3a1.7.9-1_amd64.deb ... Unpacking libxi6:amd64 (2:1.7.9-1) ... Selecting previously unselected package libxtst6:amd64. Preparing to unpack .../085-libxtst6_2%3a1.2.3-1_amd64.deb ... Unpacking libxtst6:amd64 (2:1.2.3-1) ... Selecting previously unselected package openjdk-11-jre-headless:amd64. Preparing to unpack .../086-openjdk-11-jre-headless_11.0.1+13-3ubuntu1_amd64.deb ... Unpacking openjdk-11-jre-headless:amd64 (11.0.1+13-3ubuntu1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../087-default-jre-headless_2%3a1.11-70_amd64.deb ... Unpacking default-jre-headless (2:1.11-70) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../088-ca-certificates-java_20180516ubuntu1_all.deb ... Unpacking ca-certificates-java (20180516ubuntu1) ... Selecting previously unselected package dbus-user-session. Preparing to unpack .../089-dbus-user-session_1.12.10-1ubuntu2_amd64.deb ... Unpacking dbus-user-session (1.12.10-1ubuntu2) ... Selecting previously unselected package libdconf1:amd64. Preparing to unpack .../090-libdconf1_0.30.1-1_amd64.deb ... Unpacking libdconf1:amd64 (0.30.1-1) ... Selecting previously unselected package dconf-service. Preparing to unpack .../091-dconf-service_0.30.1-1_amd64.deb ... Unpacking dconf-service (0.30.1-1) ... Selecting previously unselected package dconf-gsettings-backend:amd64. Preparing to unpack .../092-dconf-gsettings-backend_0.30.1-1_amd64.deb ... Unpacking dconf-gsettings-backend:amd64 (0.30.1-1) ... Selecting previously unselected package libtool. Preparing to unpack .../093-libtool_2.4.6-6_all.deb ... Unpacking libtool (2.4.6-6) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../094-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../095-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../096-libfile-stripnondeterminism-perl_1.0.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.0.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../097-dh-strip-nondeterminism_1.0.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.0.0-1) ... Selecting previously unselected package dwz. Preparing to unpack .../098-dwz_0.12-3_amd64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../099-gettext_0.19.8.1-9_amd64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../100-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../101-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../102-debhelper_11.5.3ubuntu1_all.deb ... Unpacking debhelper (11.5.3ubuntu1) ... Selecting previously unselected package libatk1.0-data. Preparing to unpack .../103-libatk1.0-data_2.30.0-1_all.deb ... Unpacking libatk1.0-data (2.30.0-1) ... Selecting previously unselected package libatk1.0-0:amd64. Preparing to unpack .../104-libatk1.0-0_2.30.0-1_amd64.deb ... Unpacking libatk1.0-0:amd64 (2.30.0-1) ... Selecting previously unselected package libatspi2.0-0:amd64. Preparing to unpack .../105-libatspi2.0-0_2.30.0-5_amd64.deb ... Unpacking libatspi2.0-0:amd64 (2.30.0-5) ... Selecting previously unselected package libatk-bridge2.0-0:amd64. Preparing to unpack .../106-libatk-bridge2.0-0_2.30.0-2_amd64.deb ... Unpacking libatk-bridge2.0-0:amd64 (2.30.0-2) ... Selecting previously unselected package libcairo-gobject2:amd64. Preparing to unpack .../107-libcairo-gobject2_1.16.0-1_amd64.deb ... Unpacking libcairo-gobject2:amd64 (1.16.0-1) ... Selecting previously unselected package libcolord2:amd64. Preparing to unpack .../108-libcolord2_1.4.3-3_amd64.deb ... Unpacking libcolord2:amd64 (1.4.3-3) ... Selecting previously unselected package libepoxy0:amd64. Preparing to unpack .../109-libepoxy0_1.5.3-0.1_amd64.deb ... Unpacking libepoxy0:amd64 (1.5.3-0.1) ... Selecting previously unselected package libjson-glib-1.0-common. Preparing to unpack .../110-libjson-glib-1.0-common_1.4.4-1_all.deb ... Unpacking libjson-glib-1.0-common (1.4.4-1) ... Selecting previously unselected package libjson-glib-1.0-0:amd64. Preparing to unpack .../111-libjson-glib-1.0-0_1.4.4-1_amd64.deb ... Unpacking libjson-glib-1.0-0:amd64 (1.4.4-1) ... Selecting previously unselected package libproxy1v5:amd64. Preparing to unpack .../112-libproxy1v5_0.4.15-3_amd64.deb ... Unpacking libproxy1v5:amd64 (0.4.15-3) ... Selecting previously unselected package glib-networking-common. Preparing to unpack .../113-glib-networking-common_2.58.0-1_all.deb ... Unpacking glib-networking-common (2.58.0-1) ... Selecting previously unselected package glib-networking-services. Preparing to unpack .../114-glib-networking-services_2.58.0-1_amd64.deb ... Unpacking glib-networking-services (2.58.0-1) ... Selecting previously unselected package gsettings-desktop-schemas. Preparing to unpack .../115-gsettings-desktop-schemas_3.28.1-1ubuntu1_all.deb ... Unpacking gsettings-desktop-schemas (3.28.1-1ubuntu1) ... Selecting previously unselected package glib-networking:amd64. Preparing to unpack .../116-glib-networking_2.58.0-1_amd64.deb ... Unpacking glib-networking:amd64 (2.58.0-1) ... Selecting previously unselected package libsoup2.4-1:amd64. Preparing to unpack .../117-libsoup2.4-1_2.64.2-1_amd64.deb ... Unpacking libsoup2.4-1:amd64 (2.64.2-1) ... Selecting previously unselected package libsoup-gnome2.4-1:amd64. Preparing to unpack .../118-libsoup-gnome2.4-1_2.64.2-1_amd64.deb ... Unpacking libsoup-gnome2.4-1:amd64 (2.64.2-1) ... Selecting previously unselected package librest-0.7-0:amd64. Preparing to unpack .../119-librest-0.7-0_0.8.1-1_amd64.deb ... Unpacking librest-0.7-0:amd64 (0.8.1-1) ... Selecting previously unselected package libwayland-client0:amd64. Preparing to unpack .../120-libwayland-client0_1.16.0-1ubuntu2_amd64.deb ... Unpacking libwayland-client0:amd64 (1.16.0-1ubuntu2) ... Selecting previously unselected package libwayland-cursor0:amd64. Preparing to unpack .../121-libwayland-cursor0_1.16.0-1ubuntu2_amd64.deb ... Unpacking libwayland-cursor0:amd64 (1.16.0-1ubuntu2) ... Selecting previously unselected package libwayland-egl1:amd64. Preparing to unpack .../122-libwayland-egl1_1.16.0-1ubuntu2_amd64.deb ... Unpacking libwayland-egl1:amd64 (1.16.0-1ubuntu2) ... Selecting previously unselected package libxcomposite1:amd64. Preparing to unpack .../123-libxcomposite1_1%3a0.4.4-2_amd64.deb ... Unpacking libxcomposite1:amd64 (1:0.4.4-2) ... Selecting previously unselected package libxfixes3:amd64. Preparing to unpack .../124-libxfixes3_1%3a5.0.3-1_amd64.deb ... Unpacking libxfixes3:amd64 (1:5.0.3-1) ... Selecting previously unselected package libxcursor1:amd64. Preparing to unpack .../125-libxcursor1_1%3a1.1.15-2_amd64.deb ... Unpacking libxcursor1:amd64 (1:1.1.15-2) ... Selecting previously unselected package libxdamage1:amd64. Preparing to unpack .../126-libxdamage1_1%3a1.1.4-3_amd64.deb ... Unpacking libxdamage1:amd64 (1:1.1.4-3) ... Selecting previously unselected package libxinerama1:amd64. Preparing to unpack .../127-libxinerama1_2%3a1.1.4-1_amd64.deb ... Unpacking libxinerama1:amd64 (2:1.1.4-1) ... Selecting previously unselected package libxkbcommon0:amd64. Preparing to unpack .../128-libxkbcommon0_0.8.2-1_amd64.deb ... Unpacking libxkbcommon0:amd64 (0.8.2-1) ... Selecting previously unselected package libxrandr2:amd64. Preparing to unpack .../129-libxrandr2_2%3a1.5.1-1_amd64.deb ... Unpacking libxrandr2:amd64 (2:1.5.1-1) ... Selecting previously unselected package libgtk-3-common. Preparing to unpack .../130-libgtk-3-common_3.24.2-2ubuntu2_all.deb ... Unpacking libgtk-3-common (3.24.2-2ubuntu2) ... Selecting previously unselected package libgtk-3-0:amd64. Preparing to unpack .../131-libgtk-3-0_3.24.2-2ubuntu2_amd64.deb ... Unpacking libgtk-3-0:amd64 (3.24.2-2ubuntu2) ... Selecting previously unselected package libglvnd0:amd64. Preparing to unpack .../132-libglvnd0_1.1.0-1_amd64.deb ... Unpacking libglvnd0:amd64 (1.1.0-1) ... Selecting previously unselected package libglapi-mesa:amd64. Preparing to unpack .../133-libglapi-mesa_18.2.6-1ubuntu1_amd64.deb ... Unpacking libglapi-mesa:amd64 (18.2.6-1ubuntu1) ... Selecting previously unselected package libx11-xcb1:amd64. Preparing to unpack .../134-libx11-xcb1_2%3a1.6.7-1_amd64.deb ... Unpacking libx11-xcb1:amd64 (2:1.6.7-1) ... Selecting previously unselected package libxcb-dri2-0:amd64. Preparing to unpack .../135-libxcb-dri2-0_1.13.1-2_amd64.deb ... Unpacking libxcb-dri2-0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-dri3-0:amd64. Preparing to unpack .../136-libxcb-dri3-0_1.13.1-2_amd64.deb ... Unpacking libxcb-dri3-0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-glx0:amd64. Preparing to unpack .../137-libxcb-glx0_1.13.1-2_amd64.deb ... Unpacking libxcb-glx0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-present0:amd64. Preparing to unpack .../138-libxcb-present0_1.13.1-2_amd64.deb ... Unpacking libxcb-present0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-sync1:amd64. Preparing to unpack .../139-libxcb-sync1_1.13.1-2_amd64.deb ... Unpacking libxcb-sync1:amd64 (1.13.1-2) ... Selecting previously unselected package libxshmfence1:amd64. Preparing to unpack .../140-libxshmfence1_1.3-1_amd64.deb ... Unpacking libxshmfence1:amd64 (1.3-1) ... Selecting previously unselected package libdrm-amdgpu1:amd64. Preparing to unpack .../141-libdrm-amdgpu1_2.4.95-1_amd64.deb ... Unpacking libdrm-amdgpu1:amd64 (2.4.95-1) ... Selecting previously unselected package libpciaccess0:amd64. Preparing to unpack .../142-libpciaccess0_0.14-1_amd64.deb ... Unpacking libpciaccess0:amd64 (0.14-1) ... Selecting previously unselected package libdrm-intel1:amd64. Preparing to unpack .../143-libdrm-intel1_2.4.95-1_amd64.deb ... Unpacking libdrm-intel1:amd64 (2.4.95-1) ... Selecting previously unselected package libdrm-nouveau2:amd64. Preparing to unpack .../144-libdrm-nouveau2_2.4.95-1_amd64.deb ... Unpacking libdrm-nouveau2:amd64 (2.4.95-1) ... Selecting previously unselected package libdrm-radeon1:amd64. Preparing to unpack .../145-libdrm-radeon1_2.4.95-1_amd64.deb ... Unpacking libdrm-radeon1:amd64 (2.4.95-1) ... Selecting previously unselected package libllvm7:amd64. Preparing to unpack .../146-libllvm7_1%3a7.0.1~+rc3-2_amd64.deb ... Unpacking libllvm7:amd64 (1:7.0.1~+rc3-2) ... Selecting previously unselected package libsensors4:amd64. Preparing to unpack .../147-libsensors4_1%3a3.4.0-4_amd64.deb ... Unpacking libsensors4:amd64 (1:3.4.0-4) ... Selecting previously unselected package libgl1-mesa-dri:amd64. Preparing to unpack .../148-libgl1-mesa-dri_18.2.6-1ubuntu1_amd64.deb ... Unpacking libgl1-mesa-dri:amd64 (18.2.6-1ubuntu1) ... Selecting previously unselected package libglx-mesa0:amd64. Preparing to unpack .../149-libglx-mesa0_18.2.6-1ubuntu1_amd64.deb ... Unpacking libglx-mesa0:amd64 (18.2.6-1ubuntu1) ... Selecting previously unselected package libglx0:amd64. Preparing to unpack .../150-libglx0_1.1.0-1_amd64.deb ... Unpacking libglx0:amd64 (1.1.0-1) ... Selecting previously unselected package libgl1:amd64. Preparing to unpack .../151-libgl1_1.1.0-1_amd64.deb ... Unpacking libgl1:amd64 (1.1.0-1) ... Selecting previously unselected package libgif7:amd64. Preparing to unpack .../152-libgif7_5.1.4-3_amd64.deb ... Unpacking libgif7:amd64 (5.1.4-3) ... Selecting previously unselected package openjdk-11-jre:amd64. Preparing to unpack .../153-openjdk-11-jre_11.0.1+13-3ubuntu1_amd64.deb ... Unpacking openjdk-11-jre:amd64 (11.0.1+13-3ubuntu1) ... Selecting previously unselected package default-jre. Preparing to unpack .../154-default-jre_2%3a1.11-70_amd64.deb ... Unpacking default-jre (2:1.11-70) ... Selecting previously unselected package openjdk-11-jdk-headless:amd64. Preparing to unpack .../155-openjdk-11-jdk-headless_11.0.1+13-3ubuntu1_amd64.deb ... Unpacking openjdk-11-jdk-headless:amd64 (11.0.1+13-3ubuntu1) ... Selecting previously unselected package default-jdk-headless. Preparing to unpack .../156-default-jdk-headless_2%3a1.11-70_amd64.deb ... Unpacking default-jdk-headless (2:1.11-70) ... Selecting previously unselected package openjdk-11-jdk:amd64. Preparing to unpack .../157-openjdk-11-jdk_11.0.1+13-3ubuntu1_amd64.deb ... Unpacking openjdk-11-jdk:amd64 (11.0.1+13-3ubuntu1) ... Selecting previously unselected package default-jdk. Preparing to unpack .../158-default-jdk_2%3a1.11-70_amd64.deb ... Unpacking default-jdk (2:1.11-70) ... Selecting previously unselected package fonts-lmodern. Preparing to unpack .../159-fonts-lmodern_2.004.5-5_all.deb ... Unpacking fonts-lmodern (2.004.5-5) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../160-libgfortran5_8.2.0-12ubuntu1_amd64.deb ... Unpacking libgfortran5:amd64 (8.2.0-12ubuntu1) ... Selecting previously unselected package libgfortran-8-dev:amd64. Preparing to unpack .../161-libgfortran-8-dev_8.2.0-12ubuntu1_amd64.deb ... Unpacking libgfortran-8-dev:amd64 (8.2.0-12ubuntu1) ... Selecting previously unselected package gfortran-8. Preparing to unpack .../162-gfortran-8_8.2.0-12ubuntu1_amd64.deb ... Unpacking gfortran-8 (8.2.0-12ubuntu1) ... Selecting previously unselected package gfortran. Preparing to unpack .../163-gfortran_4%3a8.2.0-2ubuntu2_amd64.deb ... Unpacking gfortran (4:8.2.0-2ubuntu2) ... Selecting previously unselected package gir1.2-freedesktop:amd64. Preparing to unpack .../164-gir1.2-freedesktop_1.58.2-1_amd64.deb ... Unpacking gir1.2-freedesktop:amd64 (1.58.2-1) ... Selecting previously unselected package gir1.2-harfbuzz-0.0:amd64. Preparing to unpack .../165-gir1.2-harfbuzz-0.0_2.1.1-1build1_amd64.deb ... Unpacking gir1.2-harfbuzz-0.0:amd64 (2.1.1-1build1) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../166-libxft2_2.3.2-2_amd64.deb ... Unpacking libxft2:amd64 (2.3.2-2) ... Selecting previously unselected package libpangoxft-1.0-0:amd64. Preparing to unpack .../167-libpangoxft-1.0-0_1.42.4-5_amd64.deb ... Unpacking libpangoxft-1.0-0:amd64 (1.42.4-5) ... Selecting previously unselected package gir1.2-pango-1.0:amd64. Preparing to unpack .../168-gir1.2-pango-1.0_1.42.4-5_amd64.deb ... Unpacking gir1.2-pango-1.0:amd64 (1.42.4-5) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../169-icu-devtools_63.1-5_amd64.deb ... Unpacking icu-devtools (63.1-5) ... Selecting previously unselected package libroken18-heimdal:amd64. Preparing to unpack .../170-libroken18-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libroken18-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libasn1-8-heimdal:amd64. Preparing to unpack .../171-libasn1-8-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libasn1-8-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../172-libblas3_3.8.0-2_amd64.deb ... Unpacking libblas3:amd64 (3.8.0-2) ... Selecting previously unselected package libblas-dev:amd64. Preparing to unpack .../173-libblas-dev_3.8.0-2_amd64.deb ... Unpacking libblas-dev:amd64 (3.8.0-2) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../174-libbrotli1_1.0.7-1_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.7-1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../175-libbz2-dev_1.0.6-9_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.6-9) ... Selecting previously unselected package liblzo2-2:amd64. Preparing to unpack .../176-liblzo2-2_2.10-0.1_amd64.deb ... Unpacking liblzo2-2:amd64 (2.10-0.1) ... Selecting previously unselected package libcairo-script-interpreter2:amd64. Preparing to unpack .../177-libcairo-script-interpreter2_1.16.0-1_amd64.deb ... Unpacking libcairo-script-interpreter2:amd64 (1.16.0-1) ... Selecting previously unselected package libexpat1-dev:amd64. Preparing to unpack .../178-libexpat1-dev_2.2.6-1_amd64.deb ... Unpacking libexpat1-dev:amd64 (2.2.6-1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../179-zlib1g-dev_1%3a1.2.11.dfsg-0ubuntu2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Selecting previously unselected package libpng-dev:amd64. Preparing to unpack .../180-libpng-dev_1.6.34-2_amd64.deb ... Unpacking libpng-dev:amd64 (1.6.34-2) ... Selecting previously unselected package libfreetype6-dev:amd64. Preparing to unpack .../181-libfreetype6-dev_2.8.1-2ubuntu2_amd64.deb ... Unpacking libfreetype6-dev:amd64 (2.8.1-2ubuntu2) ... Selecting previously unselected package uuid-dev:amd64. Preparing to unpack .../182-uuid-dev_2.32-0.1ubuntu2_amd64.deb ... Unpacking uuid-dev:amd64 (2.32-0.1ubuntu2) ... Selecting previously unselected package pkg-config. Preparing to unpack .../183-pkg-config_0.29.1-0ubuntu2_amd64.deb ... Unpacking pkg-config (0.29.1-0ubuntu2) ... Selecting previously unselected package libfontconfig1-dev:amd64. Preparing to unpack .../184-libfontconfig1-dev_2.13.0-5ubuntu3_amd64.deb ... Unpacking libfontconfig1-dev:amd64 (2.13.0-5ubuntu3) ... Selecting previously unselected package xorg-sgml-doctools. Preparing to unpack .../185-xorg-sgml-doctools_1%3a1.11-1_all.deb ... Unpacking xorg-sgml-doctools (1:1.11-1) ... Selecting previously unselected package x11proto-dev. Preparing to unpack .../186-x11proto-dev_2018.4-4_all.deb ... Unpacking x11proto-dev (2018.4-4) ... Selecting previously unselected package x11proto-core-dev. Preparing to unpack .../187-x11proto-core-dev_2018.4-4_all.deb ... Unpacking x11proto-core-dev (2018.4-4) ... Selecting previously unselected package libxau-dev:amd64. Preparing to unpack .../188-libxau-dev_1%3a1.0.8-1_amd64.deb ... Unpacking libxau-dev:amd64 (1:1.0.8-1) ... Selecting previously unselected package libxdmcp-dev:amd64. Preparing to unpack .../189-libxdmcp-dev_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp-dev:amd64 (1:1.1.2-3) ... Selecting previously unselected package xtrans-dev. Preparing to unpack .../190-xtrans-dev_1.3.5-1_all.deb ... Unpacking xtrans-dev (1.3.5-1) ... Selecting previously unselected package libpthread-stubs0-dev:amd64. Preparing to unpack .../191-libpthread-stubs0-dev_0.3-4_amd64.deb ... Unpacking libpthread-stubs0-dev:amd64 (0.3-4) ... Selecting previously unselected package libxcb1-dev:amd64. Preparing to unpack .../192-libxcb1-dev_1.13.1-2_amd64.deb ... Unpacking libxcb1-dev:amd64 (1.13.1-2) ... Selecting previously unselected package libx11-dev:amd64. Preparing to unpack .../193-libx11-dev_2%3a1.6.7-1_amd64.deb ... Unpacking libx11-dev:amd64 (2:1.6.7-1) ... Selecting previously unselected package libxrender-dev:amd64. Preparing to unpack .../194-libxrender-dev_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender-dev:amd64 (1:0.9.10-1) ... Selecting previously unselected package x11proto-xext-dev. Preparing to unpack .../195-x11proto-xext-dev_2018.4-4_all.deb ... Unpacking x11proto-xext-dev (2018.4-4) ... Selecting previously unselected package libxext-dev:amd64. Preparing to unpack .../196-libxext-dev_2%3a1.3.3-1_amd64.deb ... Unpacking libxext-dev:amd64 (2:1.3.3-1) ... Selecting previously unselected package libice-dev:amd64. Preparing to unpack .../197-libice-dev_2%3a1.0.9-2_amd64.deb ... Unpacking libice-dev:amd64 (2:1.0.9-2) ... Selecting previously unselected package libsm-dev:amd64. Preparing to unpack .../198-libsm-dev_2%3a1.2.2-1_amd64.deb ... Unpacking libsm-dev:amd64 (2:1.2.2-1) ... Selecting previously unselected package libpixman-1-dev:amd64. Preparing to unpack .../199-libpixman-1-dev_0.36.0-1_amd64.deb ... Unpacking libpixman-1-dev:amd64 (0.36.0-1) ... Selecting previously unselected package libxcb-render0-dev:amd64. Preparing to unpack .../200-libxcb-render0-dev_1.13.1-2_amd64.deb ... Unpacking libxcb-render0-dev:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-shm0-dev:amd64. Preparing to unpack .../201-libxcb-shm0-dev_1.13.1-2_amd64.deb ... Unpacking libxcb-shm0-dev:amd64 (1.13.1-2) ... Selecting previously unselected package libglib2.0-bin. Preparing to unpack .../202-libglib2.0-bin_2.58.1-2_amd64.deb ... Unpacking libglib2.0-bin (2.58.1-2) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../203-python3-lib2to3_3.7.1-1ubuntu4_all.deb ... Unpacking python3-lib2to3 (3.7.1-1ubuntu4) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../204-python3-distutils_3.7.1-1ubuntu4_all.deb ... Unpacking python3-distutils (3.7.1-1ubuntu4) ... Selecting previously unselected package libglib2.0-dev-bin. Preparing to unpack .../205-libglib2.0-dev-bin_2.58.1-2_amd64.deb ... Unpacking libglib2.0-dev-bin (2.58.1-2) ... Selecting previously unselected package libpcre16-3:amd64. Preparing to unpack .../206-libpcre16-3_2%3a8.39-11_amd64.deb ... Unpacking libpcre16-3:amd64 (2:8.39-11) ... Selecting previously unselected package libpcre32-3:amd64. Preparing to unpack .../207-libpcre32-3_2%3a8.39-11_amd64.deb ... Unpacking libpcre32-3:amd64 (2:8.39-11) ... Selecting previously unselected package libpcrecpp0v5:amd64. Preparing to unpack .../208-libpcrecpp0v5_2%3a8.39-11_amd64.deb ... Unpacking libpcrecpp0v5:amd64 (2:8.39-11) ... Selecting previously unselected package libpcre3-dev:amd64. Preparing to unpack .../209-libpcre3-dev_2%3a8.39-11_amd64.deb ... Unpacking libpcre3-dev:amd64 (2:8.39-11) ... Selecting previously unselected package libglib2.0-dev:amd64. Preparing to unpack .../210-libglib2.0-dev_2.58.1-2_amd64.deb ... Unpacking libglib2.0-dev:amd64 (2.58.1-2) ... Selecting previously unselected package libcairo2-dev:amd64. Preparing to unpack .../211-libcairo2-dev_1.16.0-1_amd64.deb ... Unpacking libcairo2-dev:amd64 (1.16.0-1) ... Selecting previously unselected package libcupsimage2:amd64. Preparing to unpack .../212-libcupsimage2_2.2.10-3_amd64.deb ... Unpacking libcupsimage2:amd64 (2.2.10-3) ... Selecting previously unselected package libheimbase1-heimdal:amd64. Preparing to unpack .../213-libheimbase1-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libheimbase1-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libhcrypto4-heimdal:amd64. Preparing to unpack .../214-libhcrypto4-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libwind0-heimdal:amd64. Preparing to unpack .../215-libwind0-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libwind0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libhx509-5-heimdal:amd64. Preparing to unpack .../216-libhx509-5-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libhx509-5-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libkrb5-26-heimdal:amd64. Preparing to unpack .../217-libkrb5-26-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libheimntlm0-heimdal:amd64. Preparing to unpack .../218-libheimntlm0-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libgssapi3-heimdal:amd64. Preparing to unpack .../219-libgssapi3-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libgssapi3-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../220-libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu2_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../221-libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../222-libldap-common_2.4.46+dfsg-5ubuntu3_all.deb ... Unpacking libldap-common (2.4.46+dfsg-5ubuntu3) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../223-libldap-2.4-2_2.4.46+dfsg-5ubuntu3_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.46+dfsg-5ubuntu3) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../224-libnghttp2-14_1.35.1-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.35.1-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../225-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../226-libcurl4_7.61.0-1ubuntu2.2_amd64.deb ... Unpacking libcurl4:amd64 (7.61.0-1ubuntu2.2) ... Selecting previously unselected package libcurl4-openssl-dev:amd64. Preparing to unpack .../227-libcurl4-openssl-dev_7.61.0-1ubuntu2.2_amd64.deb ... Unpacking libcurl4-openssl-dev:amd64 (7.61.0-1ubuntu2.2) ... Selecting previously unselected package libfontenc1:amd64. Preparing to unpack .../228-libfontenc1_1%3a1.1.3-1_amd64.deb ... Unpacking libfontenc1:amd64 (1:1.1.3-1) ... Selecting previously unselected package libfribidi-dev. Preparing to unpack .../229-libfribidi-dev_1.0.5-3_amd64.deb ... Unpacking libfribidi-dev (1.0.5-3) ... Selecting previously unselected package libgraphite2-dev:amd64. Preparing to unpack .../230-libgraphite2-dev_1.3.12-1_amd64.deb ... Unpacking libgraphite2-dev:amd64 (1.3.12-1) ... Selecting previously unselected package libijs-0.35:amd64. Preparing to unpack .../231-libijs-0.35_0.35-13_amd64.deb ... Unpacking libijs-0.35:amd64 (0.35-13) ... Selecting previously unselected package libjbig2dec0:amd64. Preparing to unpack .../232-libjbig2dec0_0.15-2_amd64.deb ... Unpacking libjbig2dec0:amd64 (0.15-2) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../233-libpaper1_1.1.26_amd64.deb ... Unpacking libpaper1:amd64 (1.1.26) ... Selecting previously unselected package libgs9-common. Preparing to unpack .../234-libgs9-common_9.26~dfsg+0-0ubuntu3_all.deb ... Unpacking libgs9-common (9.26~dfsg+0-0ubuntu3) ... Selecting previously unselected package libgs9:amd64. Preparing to unpack .../235-libgs9_9.26~dfsg+0-0ubuntu3_amd64.deb ... Unpacking libgs9:amd64 (9.26~dfsg+0-0ubuntu3) ... Selecting previously unselected package libharfbuzz-icu0:amd64. Preparing to unpack .../236-libharfbuzz-icu0_2.1.1-1build1_amd64.deb ... Unpacking libharfbuzz-icu0:amd64 (2.1.1-1build1) ... Selecting previously unselected package libharfbuzz-gobject0:amd64. Preparing to unpack .../237-libharfbuzz-gobject0_2.1.1-1build1_amd64.deb ... Unpacking libharfbuzz-gobject0:amd64 (2.1.1-1build1) ... Selecting previously unselected package libicu-dev. Preparing to unpack .../238-libicu-dev_63.1-5_amd64.deb ... Unpacking libicu-dev (63.1-5) ... Selecting previously unselected package libharfbuzz-dev:amd64. Preparing to unpack .../239-libharfbuzz-dev_2.1.1-1build1_amd64.deb ... Unpacking libharfbuzz-dev:amd64 (2.1.1-1build1) ... Selecting previously unselected package libjpeg-turbo8-dev:amd64. Preparing to unpack .../240-libjpeg-turbo8-dev_2.0.0-0ubuntu2_amd64.deb ... Unpacking libjpeg-turbo8-dev:amd64 (2.0.0-0ubuntu2) ... Selecting previously unselected package libjpeg8-dev:amd64. Preparing to unpack .../241-libjpeg8-dev_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8-dev:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libjpeg-dev:amd64. Preparing to unpack .../242-libjpeg-dev_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg-dev:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libkpathsea6:amd64. Preparing to unpack .../243-libkpathsea6_2018.20181214.49410-1_amd64.deb ... Unpacking libkpathsea6:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../244-liblapack3_3.8.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.8.0-2) ... Selecting previously unselected package liblapack-dev:amd64. Preparing to unpack .../245-liblapack-dev_3.8.0-2_amd64.deb ... Unpacking liblapack-dev:amd64 (3.8.0-2) ... Selecting previously unselected package libmime-charset-perl. Preparing to unpack .../246-libmime-charset-perl_1.012.2-1_all.deb ... Unpacking libmime-charset-perl (1.012.2-1) ... Selecting previously unselected package libncurses-dev:amd64. Preparing to unpack .../247-libncurses-dev_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncurses-dev:amd64 (6.1+20180210-4ubuntu1) ... Selecting previously unselected package libncurses5-dev:amd64. Preparing to unpack .../248-libncurses5-dev_6.1+20180210-4ubuntu1_amd64.deb ... Unpacking libncurses5-dev:amd64 (6.1+20180210-4ubuntu1) ... Selecting previously unselected package libxft-dev:amd64. Preparing to unpack .../249-libxft-dev_2.3.2-2_amd64.deb ... Unpacking libxft-dev:amd64 (2.3.2-2) ... Selecting previously unselected package pango1.0-tools. Preparing to unpack .../250-pango1.0-tools_1.42.4-5_amd64.deb ... Unpacking pango1.0-tools (1.42.4-5) ... Selecting previously unselected package libpango1.0-dev:amd64. Preparing to unpack .../251-libpango1.0-dev_1.42.4-5_amd64.deb ... Unpacking libpango1.0-dev:amd64 (1.42.4-5) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../252-libpaper-utils_1.1.26_amd64.deb ... Unpacking libpaper-utils (1.1.26) ... Selecting previously unselected package libpotrace0:amd64. Preparing to unpack .../253-libpotrace0_1.15-1_amd64.deb ... Unpacking libpotrace0:amd64 (1.15-1) ... Selecting previously unselected package libptexenc1:amd64. Preparing to unpack .../254-libptexenc1_2018.20181214.49410-1_amd64.deb ... Unpacking libptexenc1:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package libreadline-dev:amd64. Preparing to unpack .../255-libreadline-dev_7.0-5_amd64.deb ... Unpacking libreadline-dev:amd64 (7.0-5) ... Selecting previously unselected package libsombok3:amd64. Preparing to unpack .../256-libsombok3_2.4.0-2_amd64.deb ... Unpacking libsombok3:amd64 (2.4.0-2) ... Selecting previously unselected package libsynctex2:amd64. Preparing to unpack .../257-libsynctex2_2018.20181214.49410-1_amd64.deb ... Unpacking libsynctex2:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../258-libtcl8.6_8.6.9+dfsg-1_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.9+dfsg-1) ... Selecting previously unselected package libteckit0:amd64. Preparing to unpack .../259-libteckit0_2.5.8+ds2-5ubuntu1_amd64.deb ... Unpacking libteckit0:amd64 (2.5.8+ds2-5ubuntu1) ... Selecting previously unselected package libtexlua52:amd64. Preparing to unpack .../260-libtexlua52_2018.20181214.49410-1_amd64.deb ... Unpacking libtexlua52:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package libtexlua53:amd64. Preparing to unpack .../261-libtexlua53_2018.20181214.49410-1_amd64.deb ... Unpacking libtexlua53:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package libtexluajit2:amd64. Preparing to unpack .../262-libtexluajit2_2018.20181214.49410-1_amd64.deb ... Unpacking libtexluajit2:amd64 (2018.20181214.49410-1) ... Selecting previously unselected package libtext-unidecode-perl. Preparing to unpack .../263-libtext-unidecode-perl_1.30-1_all.deb ... Unpacking libtext-unidecode-perl (1.30-1) ... Selecting previously unselected package libjbig-dev:amd64. Preparing to unpack .../264-libjbig-dev_2.1-3.1build1_amd64.deb ... Unpacking libjbig-dev:amd64 (2.1-3.1build1) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../265-liblzma-dev_5.2.2-1.3_amd64.deb ... Unpacking liblzma-dev:amd64 (5.2.2-1.3) ... Selecting previously unselected package libtiffxx5:amd64. Preparing to unpack .../266-libtiffxx5_4.0.10-3_amd64.deb ... Unpacking libtiffxx5:amd64 (4.0.10-3) ... Selecting previously unselected package libtiff-dev:amd64. Preparing to unpack .../267-libtiff-dev_4.0.10-3_amd64.deb ... Unpacking libtiff-dev:amd64 (4.0.10-3) ... Selecting previously unselected package libtiff5-dev. Preparing to unpack .../268-libtiff5-dev_4.0.10-3_amd64.deb ... Unpacking libtiff5-dev (4.0.10-3) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../269-libxss1_1%3a1.2.3-1_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../270-libtk8.6_8.6.9-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.9-1) ... Selecting previously unselected package libunicode-linebreak-perl. Preparing to unpack .../271-libunicode-linebreak-perl_0.0.20170401-1build1_amd64.deb ... Unpacking libunicode-linebreak-perl (0.0.20170401-1build1) ... Selecting previously unselected package libunwind8:amd64. Preparing to unpack .../272-libunwind8_1.2.1-8_amd64.deb ... Unpacking libunwind8:amd64 (1.2.1-8) ... Selecting previously unselected package libwoff1:amd64. Preparing to unpack .../273-libwoff1_1.0.2-1build1_amd64.deb ... Unpacking libwoff1:amd64 (1.0.2-1build1) ... Selecting previously unselected package libxt6:amd64. Preparing to unpack .../274-libxt6_1%3a1.1.5-1_amd64.deb ... Unpacking libxt6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxmu6:amd64. Preparing to unpack .../275-libxmu6_2%3a1.1.2-2_amd64.deb ... Unpacking libxmu6:amd64 (2:1.1.2-2) ... Selecting previously unselected package libxpm4:amd64. Preparing to unpack .../276-libxpm4_1%3a3.5.12-1_amd64.deb ... Unpacking libxpm4:amd64 (1:3.5.12-1) ... Selecting previously unselected package libxaw7:amd64. Preparing to unpack .../277-libxaw7_2%3a1.0.13-1_amd64.deb ... Unpacking libxaw7:amd64 (2:1.0.13-1) ... Selecting previously unselected package libxfont2:amd64. Preparing to unpack .../278-libxfont2_1%3a2.0.3-1_amd64.deb ... Unpacking libxfont2:amd64 (1:2.0.3-1) ... Selecting previously unselected package libxkbfile1:amd64. Preparing to unpack .../279-libxkbfile1_1%3a1.0.9-2_amd64.deb ... Unpacking libxkbfile1:amd64 (1:1.0.9-2) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../280-libxml-namespacesupport-perl_1.12-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../281-libxml-sax-base-perl_1.09-1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../282-libxml-sax-perl_1.00+dfsg-1.1~build1_all.deb ... Unpacking libxml-sax-perl (1.00+dfsg-1.1~build1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../283-libxml-libxml-perl_2.0132+dfsg-2build1_amd64.deb ... Unpacking libxml-libxml-perl (2.0132+dfsg-2build1) ... Selecting previously unselected package x11proto-scrnsaver-dev. Preparing to unpack .../284-x11proto-scrnsaver-dev_2018.4-4_all.deb ... Unpacking x11proto-scrnsaver-dev (2018.4-4) ... Selecting previously unselected package libxss-dev:amd64. Preparing to unpack .../285-libxss-dev_1%3a1.2.3-1_amd64.deb ... Unpacking libxss-dev:amd64 (1:1.2.3-1) ... Selecting previously unselected package libxt-dev:amd64. Preparing to unpack .../286-libxt-dev_1%3a1.1.5-1_amd64.deb ... Unpacking libxt-dev:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxxhash0:amd64. Preparing to unpack .../287-libxxhash0_0.6.5-2_amd64.deb ... Unpacking libxxhash0:amd64 (0.6.5-2) ... Selecting previously unselected package libzzip-0-13:amd64. Preparing to unpack .../288-libzzip-0-13_0.13.62-3.1ubuntu1_amd64.deb ... Unpacking libzzip-0-13:amd64 (0.13.62-3.1ubuntu1) ... Selecting previously unselected package mpack. Preparing to unpack .../289-mpack_1.6-8.2_amd64.deb ... Unpacking mpack (1.6-8.2) ... Selecting previously unselected package preview-latex-style. Preparing to unpack .../290-preview-latex-style_11.91-1ubuntu1_all.deb ... Unpacking preview-latex-style (11.91-1ubuntu1) ... Selecting previously unselected package t1utils. Preparing to unpack .../291-t1utils_1.41-2_amd64.deb ... Unpacking t1utils (1.41-2) ... Selecting previously unselected package tcl8.6. Preparing to unpack .../292-tcl8.6_8.6.9+dfsg-1_amd64.deb ... Unpacking tcl8.6 (8.6.9+dfsg-1) ... Selecting previously unselected package tcl8.6-dev:amd64. Preparing to unpack .../293-tcl8.6-dev_8.6.9+dfsg-1_amd64.deb ... Unpacking tcl8.6-dev:amd64 (8.6.9+dfsg-1) ... Selecting previously unselected package texinfo. Preparing to unpack .../294-texinfo_6.5.0.dfsg.1-4build1_amd64.deb ... Unpacking texinfo (6.5.0.dfsg.1-4build1) ... Selecting previously unselected package texlive-binaries. Preparing to unpack .../295-texlive-binaries_2018.20181214.49410-1_amd64.deb ... Unpacking texlive-binaries (2018.20181214.49410-1) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../296-xdg-utils_1.1.3-1ubuntu2_all.deb ... Unpacking xdg-utils (1.1.3-1ubuntu2) ... Selecting previously unselected package texlive-base. Preparing to unpack .../297-texlive-base_2018.20181214-1_all.deb ... Unpacking texlive-base (2018.20181214-1) ... Selecting previously unselected package texlive-latex-base. Preparing to unpack .../298-texlive-latex-base_2018.20181214-1_all.deb ... Unpacking texlive-latex-base (2018.20181214-1) ... Selecting previously unselected package texlive-extra-utils. Preparing to unpack .../299-texlive-extra-utils_2018.20181214-1_all.deb ... Unpacking texlive-extra-utils (2018.20181214-1) ... Selecting previously unselected package texlive-fonts-extra. Preparing to unpack .../300-texlive-fonts-extra_2018.20181214-1_all.deb ... Unpacking texlive-fonts-extra (2018.20181214-1) ... Selecting previously unselected package texlive-fonts-recommended. Preparing to unpack .../301-texlive-fonts-recommended_2018.20181214-1_all.deb ... Unpacking texlive-fonts-recommended (2018.20181214-1) ... Selecting previously unselected package texlive-plain-generic. Preparing to unpack .../302-texlive-plain-generic_2018.20181214-1_all.deb ... Unpacking texlive-plain-generic (2018.20181214-1) ... Selecting previously unselected package texlive-generic-recommended. Preparing to unpack .../303-texlive-generic-recommended_2018.20181214-1_all.deb ... Unpacking texlive-generic-recommended (2018.20181214-1) ... Selecting previously unselected package texlive-latex-recommended. Preparing to unpack .../304-texlive-latex-recommended_2018.20181214-1_all.deb ... Unpacking texlive-latex-recommended (2018.20181214-1) ... Selecting previously unselected package texlive-pictures. Preparing to unpack .../305-texlive-pictures_2018.20181214-1_all.deb ... Unpacking texlive-pictures (2018.20181214-1) ... Selecting previously unselected package texlive-latex-extra. Preparing to unpack .../306-texlive-latex-extra_2018.20181214-1_all.deb ... Unpacking texlive-latex-extra (2018.20181214-1) ... Selecting previously unselected package tk8.6. Preparing to unpack .../307-tk8.6_8.6.9-1_amd64.deb ... Unpacking tk8.6 (8.6.9-1) ... Selecting previously unselected package tk8.6-dev:amd64. Preparing to unpack .../308-tk8.6-dev_8.6.9-1_amd64.deb ... Unpacking tk8.6-dev:amd64 (8.6.9-1) ... Selecting previously unselected package x11-xkb-utils. Preparing to unpack .../309-x11-xkb-utils_7.7+4_amd64.deb ... Unpacking x11-xkb-utils (7.7+4) ... Selecting previously unselected package xfonts-encodings. Preparing to unpack .../310-xfonts-encodings_1%3a1.0.4-2_all.deb ... Unpacking xfonts-encodings (1:1.0.4-2) ... Selecting previously unselected package xfonts-utils. Preparing to unpack .../311-xfonts-utils_1%3a7.7+6_amd64.deb ... Unpacking xfonts-utils (1:7.7+6) ... Selecting previously unselected package xfonts-base. Preparing to unpack .../312-xfonts-base_1%3a1.0.4+nmu1_all.deb ... Unpacking xfonts-base (1:1.0.4+nmu1) ... Selecting previously unselected package xserver-common. Preparing to unpack .../313-xserver-common_2%3a1.20.3-1ubuntu1_all.deb ... Unpacking xserver-common (2:1.20.3-1ubuntu1) ... Selecting previously unselected package xvfb. Preparing to unpack .../314-xvfb_2%3a1.20.3-1ubuntu1_amd64.deb ... Unpacking xvfb (2:1.20.3-1ubuntu1) ... Selecting previously unselected package sbuild-build-depends-r-base-dummy. Preparing to unpack .../315-sbuild-build-depends-r-base-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-r-base-dummy (0.invalid.0) ... Setting up libgs9-common (9.26~dfsg+0-0ubuntu3) ... Setting up libbrotli1:amd64 (1.0.7-1) ... Setting up libkpathsea6:amd64 (2018.20181214.49410-1) ... Setting up libtexlua52:amd64 (2018.20181214.49410-1) ... Setting up libglvnd0:amd64 (1.1.0-1) ... Setting up libjson-glib-1.0-common (1.4.4-1) ... Setting up libbz2-dev:amd64 (1.0.6-9) ... Setting up libptexenc1:amd64 (2018.20181214.49410-1) ... Setting up glib-networking-common (2.58.0-1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libnghttp2-14:amd64 (1.35.1-1) ... Setting up mime-support (3.60ubuntu1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up libwoff1:amd64 (1.0.2-1build1) ... Setting up libicu63:amd64 (63.1-5) ... Setting up liblcms2-2:amd64 (2.9-3) ... Setting up libjbig0:amd64 (2.1-3.1build1) ... Setting up libpcsclite1:amd64 (1.8.24-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libldap-common (2.4.46+dfsg-5ubuntu3) ... Setting up libpthread-stubs0-dev:amd64 (0.3-4) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up poppler-data (0.4.9-2) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up bash-completion (1:2.8-1ubuntu1) ... Setting up libelf1:amd64 (0.175-1) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:amd64 (2.58.1-2) ... Setting up libasound2-data (1.1.7-2ubuntu0.1) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up xorg-sgml-doctools (1:1.11-1) ... Setting up libtexlua53:amd64 (2018.20181214.49410-1) ... Setting up libtext-unidecode-perl (1.30-1) ... Setting up libwayland-client0:amd64 (1.16.0-1ubuntu2) ... Setting up xkb-data (2.23.1-1ubuntu1.18.10.1) ... Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Setting up libproxy1v5:amd64 (0.4.15-3) ... Setting up java-common (0.70) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3ubuntu2) ... Setting up uuid-dev:amd64 (2.32-0.1ubuntu2) ... Setting up libgdk-pixbuf2.0-common (2.38.0+dfsg-6) ... Setting up glib-networking-services (2.58.0-1) ... Setting up libdatrie1:amd64 (0.2.12-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libsynctex2:amd64 (2018.20181214.49410-1) ... Setting up libgif7:amd64 (5.1.4-3) ... Setting up libjpeg-turbo8:amd64 (2.0.0-0ubuntu2) ... Setting up libpipeline1:amd64 (1.5.0-2) ... Setting up libroken18-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up libglapi-mesa:amd64 (18.2.6-1ubuntu1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up m4 (1.4.18-2) ... Setting up libxxhash0:amd64 (0.6.5-2) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libkrb5support0:amd64 (1.16.1-1ubuntu1) ... Setting up libnspr4:amd64 (2:4.20-1ubuntu1) ... Setting up ucf (3.0038) ... Setting up libgirepository-1.0-1:amd64 (1.58.2-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7ubuntu3) ... Setting up mpack (1.6-8.2) ... Setting up x11proto-dev (2018.4-4) ... Setting up libfreetype6:amd64 (2.8.1-2ubuntu2) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libasound2:amd64 (1.1.7-2ubuntu0.1) ... Setting up libmagic1:amd64 (1:5.34-2) ... Setting up libdrm-common (2.4.95-1) ... Setting up libjson-glib-1.0-0:amd64 (1.4.4-1) ... Setting up libgraphite2-3:amd64 (1.3.12-1) ... Setting up libjbig-dev:amd64 (2.1-3.1build1) ... Setting up libcroco3:amd64 (0.6.12-2) ... Setting up libatk1.0-data (2.30.0-1) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up pkg-config (0.29.1-0ubuntu2) ... Setting up libjbig2dec0:amd64 (0.15-2) ... Setting up libx11-xcb1:amd64 (2:1.6.7-1) ... Setting up libpixman-1-0:amd64 (0.36.0-1) ... Setting up xtrans-dev (1.3.5-1) ... Setting up libmime-charset-perl (1.012.2-1) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up gir1.2-glib-2.0:amd64 (1.58.2-1) ... Setting up x11proto-xext-dev (2018.4-4) ... Setting up libjpeg-turbo8-dev:amd64 (2.0.0-0ubuntu2) ... Setting up libglib2.0-data (2.58.1-2) ... Setting up libunwind8:amd64 (1.2.1-8) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-3) ... Setting up libepoxy0:amd64 (1.5.3-0.1) ... Setting up autotools-dev (20180224.1) ... Setting up libpixman-1-dev:amd64 (0.36.0-1) ... Setting up t1utils (1.41-2) ... Setting up libatk1.0-0:amd64 (2.30.0-1) ... Setting up libheimbase1-heimdal:amd64 (7.5.0+dfsg-2.1) ... Processing triggers for systemd (239-7ubuntu15) ... Setting up libijs-0.35:amd64 (0.35-13) ... Setting up libbison-dev:amd64 (2:3.2.2.dfsg-1) ... Setting up libfontenc1:amd64 (1:1.1.3-1) ... Setting up libdconf1:amd64 (0.30.1-1) ... Setting up libfribidi0:amd64 (1.0.5-3) ... Setting up libexpat1-dev:amd64 (2.2.6-1) ... Setting up libpciaccess0:amd64 (0.14-1) ... Setting up libpotrace0:amd64 (1.15-1) ... Setting up libsensors4:amd64 (1:3.4.0-4) ... Setting up shared-mime-info (1.10-1) ... Setting up libxkbcommon0:amd64 (0.8.2-1) ... Setting up x11proto-scrnsaver-dev (2018.4-4) ... Setting up libpcrecpp0v5:amd64 (2:8.39-11) ... Setting up libpcre32-3:amd64 (2:8.39-11) ... Setting up libteckit0:amd64 (2.5.8+ds2-5ubuntu1) ... Setting up icu-devtools (63.1-5) ... Setting up libpcre16-3:amd64 (2:8.39-11) ... Setting up libtcl8.6:amd64 (8.6.9+dfsg-1) ... Setting up libcolord2:amd64 (1.4.3-3) ... Setting up libthai-data (0.1.28-1) ... Setting up liblzma-dev:amd64 (5.2.2-1.3) ... Setting up bison (2:3.2.2.dfsg-1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libkeyutils1:amd64 (1.5.9-9.3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up x11-common (1:7.7+19ubuntu8) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libzzip-0-13:amd64 (0.13.62-3.1ubuntu1) ... Setting up xdg-utils (1.1.3-1ubuntu2) ... Processing triggers for ca-certificates (20180409) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Setting up hicolor-icon-theme (0.17-2) ... Setting up libncurses-dev:amd64 (6.1+20180210-4ubuntu1) ... Setting up libglib2.0-bin (2.58.1-2) ... Setting up libgfortran5:amd64 (8.2.0-12ubuntu1) ... Setting up libgraphite2-dev:amd64 (1.3.12-1) ... Setting up libwayland-cursor0:amd64 (1.16.0-1ubuntu2) ... Setting up libtexluajit2:amd64 (2018.20181214.49410-1) ... Setting up libwayland-egl1:amd64 (1.16.0-1ubuntu2) ... Setting up libx11-data (2:1.6.7-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.15-5) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-9) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libdbus-1-3:amd64 (1.12.10-1ubuntu2) ... Setting up liblzo2-2:amd64 (2.10-0.1) ... Setting up fonts-lmodern (2.004.5-5) ... Setting up libavahi-common-data:amd64 (0.7-4ubuntu4) ... Setting up libwebp6:amd64 (0.6.1-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (1.0.0-1) ... Setting up libxml-sax-perl (1.00+dfsg-1.1~build1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libpaper1:amd64 (1.1.26) ... Creating config file /etc/papersize with new version Setting up libk5crypto3:amd64 (1.16.1-1ubuntu1) ... Setting up libpaper-utils (1.1.26) ... Setting up libpcre3-dev:amd64 (2:8.39-11) ... Setting up libpython3.7-stdlib:amd64 (3.7.2~rc1-1) ... Setting up fontconfig-config (2.13.0-5ubuntu3) ... Setting up tex-common (6.10) ... update-language: texlive-base not installed and configured, doing nothing! Setting up x11proto-core-dev (2018.4-4) ... Setting up libwind0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up gettext (0.19.8.1-9) ... Setting up libblas-dev:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libllvm7:amd64 (1:7.0.1~+rc3-2) ... Setting up gir1.2-freedesktop:amd64 (1.58.2-1) ... Setting up libasn1-8-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up python2.7 (2.7.15-5) ... Setting up libnss3:amd64 (2:3.39-1ubuntu1) ... Setting up libxfont2:amd64 (1:2.0.3-1) ... Setting up libharfbuzz0b:amd64 (2.1.1-1build1) ... Setting up libtiff5:amd64 (4.0.10-3) ... Setting up libxau-dev:amd64 (1:1.0.8-1) ... Setting up preview-latex-style (11.91-1ubuntu1) ... Setting up python3.7 (3.7.2~rc1-1) ... Setting up autoconf (2.69-11) ... Setting up libthai0:amd64 (0.1.28-1) ... Setting up libicu-dev (63.1-5) ... Setting up file (1:5.34-2) ... Setting up libhx509-5-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up xfonts-encodings (1:1.0.4-2) ... Setting up libdrm2:amd64 (2.4.95-1) ... Setting up libncurses5-dev:amd64 (6.1+20180210-4ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libdrm-intel1:amd64 (2.4.95-1) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-3) ... Setting up libjpeg8-dev:amd64 (8c-2ubuntu8) ... Setting up gir1.2-harfbuzz-0.0:amd64 (2.1.1-1build1) ... Setting up libjpeg-dev:amd64 (8c-2ubuntu8) ... Setting up libfribidi-dev (1.0.5-3) ... Setting up tcl8.6 (8.6.9+dfsg-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libreadline-dev:amd64 (7.0-5) ... Setting up libice6:amd64 (2:1.0.9-2) ... Setting up libtiffxx5:amd64 (4.0.10-3) ... Setting up man-db (2.8.4-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:amd64 (2.7.15-3) ... Setting up libkrb5-3:amd64 (1.16.1-1ubuntu1) ... Setting up libavahi-common3:amd64 (0.7-4ubuntu4) ... Setting up libdrm-radeon1:amd64 (2.4.95-1) ... Setting up libxml-libxml-perl (2.0132+dfsg-2build1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up libpng-dev:amd64 (1.6.34-2) ... Setting up dbus (1.12.10-1ubuntu2) ... Setting up libdrm-nouveau2:amd64 (2.4.95-1) ... Setting up libgfortran-8-dev:amd64 (8.2.0-12ubuntu1) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libharfbuzz-gobject0:amd64 (2.1.1-1build1) ... Setting up libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up tcl8.6-dev:amd64 (8.6.9+dfsg-1) ... Setting up libsombok3:amd64 (2.4.0-2) ... Setting up liblapack-dev:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libtool (2.4.6-6) ... Setting up libpython3-stdlib:amd64 (3.7.1-1ubuntu1) ... Setting up libxcb-present0:amd64 (1.13.1-2) ... Setting up libtiff-dev:amd64 (4.0.10-3) ... Setting up libfontconfig1:amd64 (2.13.0-5ubuntu3) ... Setting up libxcb-dri2-0:amd64 (1.13.1-2) ... Setting up libsm6:amd64 (2:1.2.2-1) ... Setting up libxcb-dri3-0:amd64 (1.13.1-2) ... Setting up libxcb-glx0:amd64 (1.13.1-2) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up libpam-systemd:amd64 (239-7ubuntu15) ... Setting up libharfbuzz-icu0:amd64 (2.1.1-1build1) ... Setting up po-debconf (1.0.21) ... Setting up python3 (3.7.1-1ubuntu1) ... Setting up libdrm-amdgpu1:amd64 (2.4.95-1) ... Setting up gfortran-8 (8.2.0-12ubuntu1) ... Setting up libtiff5-dev (4.0.10-3) ... Setting up libx11-6:amd64 (2:1.6.7-1) ... Setting up libgl1-mesa-dri:amd64 (18.2.6-1ubuntu1) ... Setting up xfonts-utils (1:7.7+6) ... Setting up python2 (2.7.15-3) ... Setting up libxmuu1:amd64 (2:1.1.2-2) ... Setting up dbus-user-session (1.12.10-1ubuntu2) ... Setting up libxcb-sync1:amd64 (1.13.1-2) ... Setting up libgssapi-krb5-2:amd64 (1.16.1-1ubuntu1) ... Setting up libpython-stdlib:amd64 (2.7.15-3) ... Setting up libfreetype6-dev:amd64 (2.8.1-2ubuntu2) ... Setting up libice-dev:amd64 (2:1.0.9-2) ... Setting up libunicode-linebreak-perl (0.0.20170401-1build1) ... Setting up libxcomposite1:amd64 (1:0.4.4-2) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libxcb1-dev:amd64 (1.13.1-2) ... Setting up libavahi-client3:amd64 (0.7-4ubuntu4) ... Setting up texinfo (6.5.0.dfsg.1-4build1) ... Running mktexlsr. This may take some time. ... done. Setting up libx11-dev:amd64 (2:1.6.7-1) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up libgssapi3-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up python3-lib2to3 (3.7.1-1ubuntu4) ... Setting up python3-distutils (3.7.1-1ubuntu4) ... Setting up python (2.7.15-3) ... Setting up xfonts-base (1:1.0.4+nmu1) ... Setting up fontconfig (2.13.0-5ubuntu3) ... Regenerating fonts cache... done. Setting up libcups2:amd64 (2.2.10-3) ... Setting up libxkbfile1:amd64 (1:1.0.9-2) ... Setting up libfontconfig1-dev:amd64 (2.13.0-5ubuntu3) ... Setting up gfortran (4:8.2.0-2ubuntu2) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libsm-dev:amd64 (2:1.2.2-1) ... Setting up libxdamage1:amd64 (1:1.1.4-3) ... Setting up libxext6:amd64 (2:1.3.3-1) ... Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up libglib2.0-dev-bin (2.58.1-2) ... Setting up dconf-service (0.30.1-1) ... Setting up libatspi2.0-0:amd64 (2.30.0-5) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libgdk-pixbuf2.0-0:amd64 (2.38.0+dfsg-6) ... Setting up libxcb-shm0-dev:amd64 (1.13.1-2) ... Setting up libxrender-dev:amd64 (1:0.9.10-1) ... Setting up libglib2.0-dev:amd64 (2.58.1-2) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up xauth (1:1.0.10-1) ... Setting up libxcb-render0-dev:amd64 (1.13.1-2) ... Setting up libcupsimage2:amd64 (2.2.10-3) ... Setting up libxft-dev:amd64 (2.3.2-2) ... Setting up gtk-update-icon-cache (3.24.2-2ubuntu2) ... Setting up libxcursor1:amd64 (1:1.1.15-2) ... Setting up libldap-2.4-2:amd64 (2.4.46+dfsg-5ubuntu3) ... Setting up libxext-dev:amd64 (2:1.3.3-1) ... Setting up libpango-1.0-0:amd64 (1.42.4-5) ... Setting up libatk-bridge2.0-0:amd64 (2.30.0-2) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1) ... Setting up libgs9:amd64 (9.26~dfsg+0-0ubuntu3) ... Setting up libharfbuzz-dev:amd64 (2.1.1-1build1) ... Setting up dconf-gsettings-backend:amd64 (0.30.1-1) ... Setting up libxrandr2:amd64 (2:1.5.1-1) ... Setting up libglx-mesa0:amd64 (18.2.6-1ubuntu1) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up libxaw7:amd64 (2:1.0.13-1) ... Setting up libcairo2:amd64 (1.16.0-1) ... Setting up libxinerama1:amd64 (2:1.1.4-1) ... Setting up libxt-dev:amd64 (1:1.1.5-1) ... Setting up gsettings-desktop-schemas (3.28.1-1ubuntu1) ... Setting up x11-xkb-utils (7.7+4) ... Setting up libcairo-script-interpreter2:amd64 (1.16.0-1) ... Setting up libgtk-3-common (3.24.2-2ubuntu2) ... Setting up libtk8.6:amd64 (8.6.9-1) ... Setting up libcairo-gobject2:amd64 (1.16.0-1) ... Setting up libcurl4:amd64 (7.61.0-1ubuntu2.2) ... Setting up texlive-binaries (2018.20181214.49410-1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libxss-dev:amd64 (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:amd64 (1.42.4-5) ... Setting up glib-networking:amd64 (2.58.0-1) ... Setting up texlive-base (2018.20181214-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/config/pdftexconfig.tex tl-paper: setting paper size for dvipdfmx to letter: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for dvips to letter: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for pdftex to letter: /var/lib/texmf/tex/generic/config/pdftexconfig.tex tl-paper: setting paper size for xdvi to letter: /var/lib/texmf/xdvi/XDvi-paper Setting up texlive-fonts-recommended (2018.20181214-1) ... Setting up texlive-plain-generic (2018.20181214-1) ... Setting up texlive-generic-recommended (2018.20181214-1) ... Setting up libglx0:amd64 (1.1.0-1) ... Setting up texlive-latex-base (2018.20181214-1) ... Setting up libcurl4-openssl-dev:amd64 (7.61.0-1ubuntu2.2) ... Setting up texlive-latex-recommended (2018.20181214-1) ... Setting up texlive-extra-utils (2018.20181214-1) ... Setting up xserver-common (2:1.20.3-1ubuntu1) ... Setting up tk8.6 (8.6.9-1) ... Setting up texlive-fonts-extra (2018.20181214-1) ... Setting up libcairo2-dev:amd64 (1.16.0-1) ... Setting up texlive-pictures (2018.20181214-1) ... Setting up tk8.6-dev:amd64 (8.6.9-1) ... Setting up libpangoxft-1.0-0:amd64 (1.42.4-5) ... Setting up libsoup2.4-1:amd64 (2.64.2-1) ... Setting up libsoup-gnome2.4-1:amd64 (2.64.2-1) ... Setting up libpangocairo-1.0-0:amd64 (1.42.4-5) ... Setting up gir1.2-pango-1.0:amd64 (1.42.4-5) ... Setting up libgl1:amd64 (1.1.0-1) ... Setting up librest-0.7-0:amd64 (0.8.1-1) ... Setting up librsvg2-2:amd64 (2.44.10-1) ... Setting up texlive-latex-extra (2018.20181214-1) ... Setting up xvfb (2:1.20.3-1ubuntu1) ... Setting up pango1.0-tools (1.42.4-5) ... Setting up librsvg2-common:amd64 (2.44.10-1) ... Setting up libpango1.0-dev:amd64 (1.42.4-5) ... Setting up adwaita-icon-theme (3.30.0-0ubuntu1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up dh-autoreconf (19) ... Setting up openjdk-11-jre-headless:amd64 (11.0.1+13-3ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jdk-headless:amd64 (11.0.1+13-3ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jaotc to provide /usr/bin/jaotc (jaotc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up humanity-icon-theme (0.6.15) ... Setting up libgtk-3-0:amd64 (3.24.2-2ubuntu2) ... Setting up dh-strip-nondeterminism (1.0.0-1) ... Setting up default-jre-headless (2:1.11-70) ... Setting up default-jdk-headless (2:1.11-70) ... Setting up openjdk-11-jre:amd64 (11.0.1+13-3ubuntu1) ... Setting up debhelper (11.5.3ubuntu1) ... Setting up ca-certificates-java (20180516ubuntu1) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:GeoTrust_Primary_Certification_Authority.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:thawte_Primary_Root_CA.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:TÜRKTRUST_Elektronik_Sertifika_Hizmet_Sağlayıcısı_H5.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:ISRG_Root_X1.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:GeoTrust_Universal_CA.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:Certplus_Root_CA_G2.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:OpenTrust_Root_CA_G3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:thawte_Primary_Root_CA_-_G3.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:Secure_Global_CA.pem Adding debian:Taiwan_GRCA.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Visa_eCommerce_Root.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:AddTrust_External_Root.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:Certplus_Class_2_Primary_CA.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:EC-ACC.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:Izenpe.com.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:SecureTrust_CA.pem Adding debian:OpenTrust_Root_CA_G2.pem Adding debian:Certinomis_-_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G4.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:AffirmTrust_Networking.pem Adding debian:Certplus_Root_CA_G1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:AffirmTrust_Premium.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:SecureSign_RootCA11.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:GeoTrust_Global_CA.pem Adding debian:ACCVRAIZ1.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G3.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G5.pem Adding debian:Deutsche_Telekom_Root_CA_2.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:Certigna.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:thawte_Primary_Root_CA_-_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:OpenTrust_Root_CA_G1.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Trusted_Root_G4.pem done. Setting up ubuntu-mono (16.10+18.10.20181005-0ubuntu1) ... Setting up default-jre (2:1.11-70) ... Setting up openjdk-11-jdk:amd64 (11.0.1+13-3ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk (2:1.11-70) ... Setting up sbuild-build-depends-r-base-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Processing triggers for systemd (239-7ubuntu15) ... Processing triggers for tex-common (6.10) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.38.0+dfsg-6) ... Processing triggers for ca-certificates (20180409) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-140-generic amd64 (x86_64) Toolchain package versions: binutils_2.31.1-11ubuntu1 dpkg-dev_1.19.2ubuntu2 g++-8_8.2.0-12ubuntu1 gcc-8_8.2.0-12ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-12ubuntu1 libstdc++6_8.2.0-12ubuntu1 linux-libc-dev_4.19.0-9.10 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 adwaita-icon-theme_3.30.0-0ubuntu1 apt_1.8.0~alpha2ubuntu1 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 bash-completion_1:2.8-1ubuntu1 binutils_2.31.1-11ubuntu1 binutils-common_2.31.1-11ubuntu1 binutils-x86-64-linux-gnu_2.31.1-11ubuntu1 bison_2:3.2.2.dfsg-1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu2 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 ca-certificates-java_20180516ubuntu1 coreutils_8.28-1ubuntu2 cpp_4:8.2.0-2ubuntu2 cpp-8_8.2.0-12ubuntu1 dash_0.5.10.2-2 dbus_1.12.10-1ubuntu2 dbus-user-session_1.12.10-1ubuntu2 dconf-gsettings-backend_0.30.1-1 dconf-service_0.30.1-1 debconf_1.5.69 debhelper_11.5.3ubuntu1 debianutils_4.8.6 default-jdk_2:1.11-70 default-jdk-headless_2:1.11-70 default-jre_2:1.11-70 default-jre-headless_2:1.11-70 dh-autoreconf_19 dh-strip-nondeterminism_1.0.0-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 dpkg_1.19.2ubuntu2 dpkg-dev_1.19.2ubuntu2 dwz_0.12-3 e2fslibs_1.44.4-2ubuntu1 e2fsprogs_1.44.4-2ubuntu1 fakeroot_1.23-1 fdisk_2.32-0.1ubuntu2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 fontconfig_2.13.0-5ubuntu3 fontconfig-config_2.13.0-5ubuntu3 fonts-dejavu-core_2.37-1 fonts-lmodern_2.004.5-5 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-12ubuntu1 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-12ubuntu1 gcc-8-base_8.2.0-12ubuntu1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gfortran_4:8.2.0-2ubuntu2 gfortran-8_8.2.0-12ubuntu1 gir1.2-freedesktop_1.58.2-1 gir1.2-glib-2.0_1.58.2-1 gir1.2-harfbuzz-0.0_2.1.1-1build1 gir1.2-pango-1.0_1.42.4-5 glib-networking_2.58.0-1 glib-networking-common_2.58.0-1 glib-networking-services_2.58.0-1 gpg_2.2.8-3ubuntu1 gpg-agent_2.2.8-3ubuntu1 gpgconf_2.2.8-3ubuntu1 gpgv_2.2.8-3ubuntu1 grep_3.1-3 groff-base_1.22.3-10 gsettings-desktop-schemas_3.28.1-1ubuntu1 gtk-update-icon-cache_3.24.2-2ubuntu2 gzip_1.6-5ubuntu2 hicolor-icon-theme_0.17-2 hostname_3.21 humanity-icon-theme_0.6.15 icu-devtools_63.1-5 init_1.56 init-system-helpers_1.56 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 java-common_0.70 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.8.0~alpha2ubuntu1 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-12ubuntu1 libasn1-8-heimdal_7.5.0+dfsg-2.1 libasound2_1.1.7-2ubuntu0.1 libasound2-data_1.1.7-2ubuntu0.1 libassuan0_2.5.2-1 libatk-bridge2.0-0_2.30.0-2 libatk1.0-0_2.30.0-1 libatk1.0-data_2.30.0-1 libatomic1_8.2.0-12ubuntu1 libatspi2.0-0_2.30.0-5 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libavahi-client3_0.7-4ubuntu4 libavahi-common-data_0.7-4ubuntu4 libavahi-common3_0.7-4ubuntu4 libbinutils_2.31.1-11ubuntu1 libbison-dev_2:3.2.2.dfsg-1 libblas-dev_3.8.0-2 libblas3_3.8.0-2 libblkid1_2.32-0.1ubuntu2 libbrotli1_1.0.7-1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libbz2-dev_1.0.6-9 libc-bin_2.28-0ubuntu1 libc-dev-bin_2.28-0ubuntu1 libc6_2.28-0ubuntu1 libc6-dev_2.28-0ubuntu1 libcairo-gobject2_1.16.0-1 libcairo-script-interpreter2_1.16.0-1 libcairo2_1.16.0-1 libcairo2-dev_1.16.0-1 libcap-ng0_0.7.9-1build1 libcap2_1:2.25-1.2 libcc1-0_8.2.0-12ubuntu1 libcolord2_1.4.3-3 libcom-err2_1.44.4-2ubuntu1 libcomerr2_1.44.4-2ubuntu1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.4-2ubuntu2 libcups2_2.2.10-3 libcupsimage2_2.2.10-3 libcurl4_7.61.0-1ubuntu2.2 libcurl4-openssl-dev_7.61.0-1ubuntu2.2 libdatrie1_0.2.12-1 libdb5.3_5.3.28+dfsg1-0.2 libdbus-1-3_1.12.10-1ubuntu2 libdconf1_0.30.1-1 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.2ubuntu2 libdrm-amdgpu1_2.4.95-1 libdrm-common_2.4.95-1 libdrm-intel1_2.4.95-1 libdrm-nouveau2_2.4.95-1 libdrm-radeon1_2.4.95-1 libdrm2_2.4.95-1 libedit2_3.1-20181209-1 libelf1_0.175-1 libepoxy0_1.5.3-0.1 libexpat1_2.2.6-1 libexpat1-dev_2.2.6-1 libext2fs2_1.44.4-2ubuntu1 libfakeroot_1.23-1 libfdisk1_2.32-0.1ubuntu2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.0.0-1 libfontconfig1_2.13.0-5ubuntu3 libfontconfig1-dev_2.13.0-5ubuntu3 libfontenc1_1:1.1.3-1 libfreetype6_2.8.1-2ubuntu2 libfreetype6-dev_2.8.1-2ubuntu2 libfribidi-dev_1.0.5-3 libfribidi0_1.0.5-3 libgcc-8-dev_8.2.0-12ubuntu1 libgcc1_1:8.2.0-12ubuntu1 libgcrypt20_1.8.4-3ubuntu1 libgdbm-compat4_1.18.1-2 libgdbm6_1.18.1-2 libgdk-pixbuf2.0-0_2.38.0+dfsg-6 libgdk-pixbuf2.0-common_2.38.0+dfsg-6 libgfortran-8-dev_8.2.0-12ubuntu1 libgfortran5_8.2.0-12ubuntu1 libgif7_5.1.4-3 libgirepository-1.0-1_1.58.2-1 libgl1_1.1.0-1 libgl1-mesa-dri_18.2.6-1ubuntu1 libglapi-mesa_18.2.6-1ubuntu1 libglib2.0-0_2.58.1-2 libglib2.0-bin_2.58.1-2 libglib2.0-data_2.58.1-2 libglib2.0-dev_2.58.1-2 libglib2.0-dev-bin_2.58.1-2 libglvnd0_1.1.0-1 libglx-mesa0_18.2.6-1ubuntu1 libglx0_1.1.0-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.4-2ubuntu2 libgomp1_8.2.0-12ubuntu1 libgpg-error0_1.33-3 libgraphite2-3_1.3.12-1 libgraphite2-dev_1.3.12-1 libgs9_9.26~dfsg+0-0ubuntu3 libgs9-common_9.26~dfsg+0-0ubuntu3 libgssapi-krb5-2_1.16.1-1ubuntu1 libgssapi3-heimdal_7.5.0+dfsg-2.1 libgtk-3-0_3.24.2-2ubuntu2 libgtk-3-common_3.24.2-2ubuntu2 libharfbuzz-dev_2.1.1-1build1 libharfbuzz-gobject0_2.1.1-1build1 libharfbuzz-icu0_2.1.1-1build1 libharfbuzz0b_2.1.1-1build1 libhcrypto4-heimdal_7.5.0+dfsg-2.1 libheimbase1-heimdal_7.5.0+dfsg-2.1 libheimntlm0-heimdal_7.5.0+dfsg-2.1 libhogweed4_3.4.1~rc1-1 libhx509-5-heimdal_7.5.0+dfsg-2.1 libice-dev_2:1.0.9-2 libice6_2:1.0.9-2 libicu-dev_63.1-5 libicu63_63.1-5 libidn11_1.33-2.2ubuntu1 libidn2-0_2.0.5-1 libijs-0.35_0.35-13 libip4tc0_1.6.1-2ubuntu3 libisl19_0.20-2 libitm1_8.2.0-12ubuntu1 libjbig-dev_2.1-3.1build1 libjbig0_2.1-3.1build1 libjbig2dec0_0.15-2 libjpeg-dev_8c-2ubuntu8 libjpeg-turbo8_2.0.0-0ubuntu2 libjpeg-turbo8-dev_2.0.0-0ubuntu2 libjpeg8_8c-2ubuntu8 libjpeg8-dev_8c-2ubuntu8 libjson-c3_0.12.1-1.3 libjson-glib-1.0-0_1.4.4-1 libjson-glib-1.0-common_1.4.4-1 libk5crypto3_1.16.1-1ubuntu1 libkeyutils1_1.5.9-9.3 libkmod2_25-1ubuntu2 libkpathsea6_2018.20181214.49410-1 libkrb5-26-heimdal_7.5.0+dfsg-2.1 libkrb5-3_1.16.1-1ubuntu1 libkrb5support0_1.16.1-1ubuntu1 liblapack-dev_3.8.0-2 liblapack3_3.8.0-2 liblcms2-2_2.9-3 libldap-2.4-2_2.4.46+dfsg-5ubuntu3 libldap-common_2.4.46+dfsg-5ubuntu3 libllvm7_1:7.0.1~+rc3-2 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.2.0-12ubuntu1 liblz4-1_1.8.2-1ubuntu1 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 liblzo2-2_2.10-0.1 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmime-charset-perl_1.012.2-1 libmount1_2.32-0.1ubuntu2 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-2 libmpx2_8.2.0-12ubuntu1 libncurses-dev_6.1+20180210-4ubuntu1 libncurses5-dev_6.1+20180210-4ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4.1~rc1-1 libnghttp2-14_1.35.1-1 libnpth0_1.6-1 libnspr4_2:4.20-1ubuntu1 libnss3_2:3.39-1ubuntu1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam-systemd_239-7ubuntu15 libpam0g_1.1.8-3.6ubuntu2 libpango-1.0-0_1.42.4-5 libpango1.0-dev_1.42.4-5 libpangocairo-1.0-0_1.42.4-5 libpangoft2-1.0-0_1.42.4-5 libpangoxft-1.0-0_1.42.4-5 libpaper-utils_1.1.26 libpaper1_1.1.26 libpciaccess0_0.14-1 libpcre16-3_2:8.39-11 libpcre3_2:8.39-11 libpcre3-dev_2:8.39-11 libpcre32-3_2:8.39-11 libpcrecpp0v5_2:8.39-11 libpcsclite1_1.8.24-1 libperl5.28_5.28.1-3 libpipeline1_1.5.0-2 libpixman-1-0_0.36.0-1 libpixman-1-dev_0.36.0-1 libpng-dev_1.6.34-2 libpng16-16_1.6.34-2 libpotrace0_1.15-1 libprocps7_2:3.3.15-2ubuntu1 libproxy1v5_0.4.15-3 libpsl5_0.20.2-2 libptexenc1_2018.20181214.49410-1 libpthread-stubs0-dev_0.3-4 libpython-stdlib_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7-minimal_2.7.15-5 libpython2.7-stdlib_2.7.15-5 libpython3-stdlib_3.7.1-1ubuntu1 libpython3.7-minimal_3.7.2~rc1-1 libpython3.7-stdlib_3.7.2~rc1-1 libquadmath0_8.2.0-12ubuntu1 libreadline-dev_7.0-5 libreadline7_7.0-5 librest-0.7-0_0.8.1-1 libroken18-heimdal_7.5.0+dfsg-2.1 librsvg2-2_2.44.10-1 librsvg2-common_2.44.10-1 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu2 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu2 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-1build2 libsemanage1_2.8-1build2 libsensors4_1:3.4.0-4 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsm-dev_2:1.2.2-1 libsm6_2:1.2.2-1 libsmartcols1_2.32-0.1ubuntu2 libsombok3_2.4.0-2 libsoup-gnome2.4-1_2.64.2-1 libsoup2.4-1_2.64.2-1 libsqlite3-0_3.26.0-3 libss2_1.44.4-2ubuntu1 libssl1.1_1.1.1a-1ubuntu2 libstdc++-8-dev_8.2.0-12ubuntu1 libstdc++6_8.2.0-12ubuntu1 libsynctex2_2018.20181214.49410-1 libsystemd0_239-7ubuntu15 libtasn1-6_4.13-3 libtcl8.6_8.6.9+dfsg-1 libteckit0_2.5.8+ds2-5ubuntu1 libtexlua52_2018.20181214.49410-1 libtexlua53_2018.20181214.49410-1 libtexluajit2_2018.20181214.49410-1 libtext-unidecode-perl_1.30-1 libthai-data_0.1.28-1 libthai0_0.1.28-1 libtiff-dev_4.0.10-3 libtiff5_4.0.10-3 libtiff5-dev_4.0.10-3 libtiffxx5_4.0.10-3 libtinfo6_6.1+20180210-4ubuntu1 libtk8.6_8.6.9-1 libtool_2.4.6-6 libtsan0_8.2.0-12ubuntu1 libubsan1_8.2.0-12ubuntu1 libudev1_239-7ubuntu15 libunicode-linebreak-perl_0.0.20170401-1build1 libunistring2_0.9.10-1ubuntu1 libunwind8_1.2.1-8 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu2 libwayland-client0_1.16.0-1ubuntu2 libwayland-cursor0_1.16.0-1ubuntu2 libwayland-egl1_1.16.0-1ubuntu2 libwebp6_0.6.1-2 libwind0-heimdal_7.5.0+dfsg-2.1 libwoff1_1.0.2-1build1 libx11-6_2:1.6.7-1 libx11-data_2:1.6.7-1 libx11-dev_2:1.6.7-1 libx11-xcb1_2:1.6.7-1 libxau-dev_1:1.0.8-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-dri2-0_1.13.1-2 libxcb-dri3-0_1.13.1-2 libxcb-glx0_1.13.1-2 libxcb-present0_1.13.1-2 libxcb-render0_1.13.1-2 libxcb-render0-dev_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb-shm0-dev_1.13.1-2 libxcb-sync1_1.13.1-2 libxcb1_1.13.1-2 libxcb1-dev_1.13.1-2 libxcomposite1_1:0.4.4-2 libxcursor1_1:1.1.15-2 libxdamage1_1:1.1.4-3 libxdmcp-dev_1:1.1.2-3 libxdmcp6_1:1.1.2-3 libxext-dev_2:1.3.3-1 libxext6_2:1.3.3-1 libxfixes3_1:5.0.3-1 libxfont2_1:2.0.3-1 libxft-dev_2.3.2-2 libxft2_2.3.2-2 libxi6_2:1.7.9-1 libxinerama1_2:1.1.4-1 libxkbcommon0_0.8.2-1 libxkbfile1_1:1.0.9-2 libxml-libxml-perl_2.0132+dfsg-2build1 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.00+dfsg-1.1~build1 libxml2_2.9.4+dfsg1-7ubuntu3 libxmu6_2:1.1.2-2 libxmuu1_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrandr2_2:1.5.1-1 libxrender-dev_1:0.9.10-1 libxrender1_1:0.9.10-1 libxshmfence1_1.3-1 libxss-dev_1:1.2.3-1 libxss1_1:1.2.3-1 libxt-dev_1:1.1.5-1 libxt6_1:1.1.5-1 libxtst6_2:1.2.3-1 libxxf86vm1_1:1.1.4-1 libxxhash0_0.6.5-2 libzstd1_1.3.5+dfsg-1ubuntu1 libzzip-0-13_0.13.62-3.1ubuntu1 linux-libc-dev_4.19.0-9.10 lockfile-progs_0.1.18 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.4-3 mawk_1.3.3-17ubuntu3 mime-support_3.60ubuntu1 mount_2.32-0.1ubuntu2 mpack_1.6-8.2 multiarch-support_2.28-0ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openjdk-11-jdk_11.0.1+13-3ubuntu1 openjdk-11-jdk-headless_11.0.1+13-3ubuntu1 openjdk-11-jre_11.0.1+13-3ubuntu1 openjdk-11-jre-headless_11.0.1+13-3ubuntu1 openssl_1.1.1a-1ubuntu2 optipng_0.7.6-1.1 pango1.0-tools_1.42.4-5 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.28_5.28.1-3 pinentry-curses_1.1.0-1build2 pkg-config_0.29.1-0ubuntu2 pkgbinarymangler_143 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 poppler-data_0.4.9-2 preview-latex-style_11.91-1ubuntu1 procps_2:3.3.15-2ubuntu1 python_2.7.15-3 python-minimal_2.7.15-3 python2_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-5 python2.7-minimal_2.7.15-5 python3_3.7.1-1ubuntu1 python3-distutils_3.7.1-1ubuntu4 python3-lib2to3_3.7.1-1ubuntu4 python3-minimal_3.7.1-1ubuntu1 python3.7_3.7.2~rc1-1 python3.7-minimal_3.7.2~rc1-1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-base-dummy_0.invalid.0 sed_4.5-2 sensible-utils_0.0.12 shared-mime-info_1.10-1 systemd_239-7ubuntu15 systemd-sysv_239-7ubuntu15 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 t1utils_1.41-2 tar_1.30+dfsg-3 tcl8.6_8.6.9+dfsg-1 tcl8.6-dev_8.6.9+dfsg-1 tex-common_6.10 texinfo_6.5.0.dfsg.1-4build1 texlive-base_2018.20181214-1 texlive-binaries_2018.20181214.49410-1 texlive-extra-utils_2018.20181214-1 texlive-fonts-extra_2018.20181214-1 texlive-fonts-recommended_2018.20181214-1 texlive-generic-recommended_2018.20181214-1 texlive-latex-base_2018.20181214-1 texlive-latex-extra_2018.20181214-1 texlive-latex-recommended_2018.20181214-1 texlive-pictures_2018.20181214-1 texlive-plain-generic_2018.20181214-1 tk8.6_8.6.9-1 tk8.6-dev_8.6.9-1 tzdata_2018g-1 ubuntu-keyring_2018.09.18.1 ubuntu-mono_16.10+18.10.20181005-0ubuntu1 ucf_3.0038 util-linux_2.32-0.1ubuntu2 uuid-dev_2.32-0.1ubuntu2 x11-common_1:7.7+19ubuntu8 x11-xkb-utils_7.7+4 x11proto-core-dev_2018.4-4 x11proto-dev_2018.4-4 x11proto-scrnsaver-dev_2018.4-4 x11proto-xext-dev_2018.4-4 xauth_1:1.0.10-1 xdg-utils_1.1.3-1ubuntu2 xfonts-base_1:1.0.4+nmu1 xfonts-encodings_1:1.0.4-2 xfonts-utils_1:7.7+6 xkb-data_2.23.1-1ubuntu1.18.10.1 xorg-sgml-doctools_1:1.11-1 xserver-common_2:1.20.3-1ubuntu1 xtrans-dev_1.3.5-1 xvfb_2:1.20.3-1ubuntu1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Dec 15 14:00:17 2018 UTC gpgv: using RSA key A1489FE2AB99A21A gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./r-base_3.5.1.20181215-1.dsc dpkg-source: info: extracting r-base in r-base-3.5.1.20181215 dpkg-source: info: unpacking r-base_3.5.1.20181215.orig.tar.gz dpkg-source: info: unpacking r-base_3.5.1.20181215-1.debian.tar.xz Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-15784596 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15784596 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15784596 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 3.5.1.20181215-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files* core debian/substvars rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build *** configure *** #automake #autoconf dh_testdir R_SHELL=/bin/bash \ mkdir_p="/bin/mkdir -p" \ MKDIR_P="/bin/mkdir -p" \ R_TEXI2DVICMD=emulation \ R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ R_BZIPCMD=/bin/bzip2 \ R_GZIPCMD="/bin/gzip -n" \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ JAVA_HOME=/usr/lib/jvm/default-java \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ TAR=/bin/tar \ LIBnn=lib \ AWK=/usr/bin/awk \ DD=/bin/dd \ GREP=/bin/grep \ FGREP="/bin/grep -F" \ EGREP="/bin/grep -E" \ SED=/bin/sed \ GETWD="/bin/pwd" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ CPPFLAGS= \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build x86_64-linux-gnu configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... /usr/bin/pager checking for /bin/tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 5.1... yes checking for ginstall-info... no checking for install-info... no checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... found zi4.sty checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip -n checking for bzip2... /bin/bzip2 using default browser ... xdg-open checking for acroread... no checking for acroread4... no checking for xdg-open... /usr/bin/xdg-open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... bison -y checking for notangle... false checking for realpath... /usr/bin/realpath checking for pkg-config... /usr/bin/pkg-config checking for gcc... gcc -std=gnu99 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -std=gnu99 -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking whether gcc -std=gnu99 needs -traditional... no checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking how to run the C preprocessor... gcc -std=gnu99 -E defining F77 to be gfortran checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc -std=gnu99 accepts -fvisibility... yes checking whether g++ accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for gcc... gcc checking whether we are using the GNU Objective C compiler... no checking whether gcc accepts -g... no checking for Objective C++ compiler... trying some possibilities checking whether g++ can compile ObjC++... no checking whether can compile ObjC++... no no working ObjC++ compiler found checking how to print strings... printf checking for a sed that does not truncate output... (cached) /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc -std=gnu99... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking for gawk... /usr/bin/awk checking command to parse /usr/bin/nm -B output from gcc -std=gnu99 object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc -std=gnu99 supports -fno-rtti -fno-exceptions... no checking for gcc -std=gnu99 option to produce PIC... -fPIC -DPIC checking if gcc -std=gnu99 PIC flag -fPIC -DPIC works... yes checking if gcc -std=gnu99 static flag -static works... yes checking if gcc -std=gnu99 supports -c -o file.o... yes checking if gcc -std=gnu99 supports -c -o file.o... (cached) yes checking whether the gcc -std=gnu99 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for cos in -lm... yes checking for sin in -lm... yes checking for dlopen in -ldl... yes checking readline/history.h usability... yes checking readline/history.h presence... yes checking for readline/history.h... yes checking readline/readline.h usability... yes checking readline/readline.h presence... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking whether rl_callback_sigcleanup exists and is declared... yes checking whether rl_completion_matches exists and is declared... yes checking whether rl_resize_terminal exists and is declared... yes checking whether rl_sort_completion_matches exists and is declared... yes checking for ANSI C header files... (cached) yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking for dlfcn.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking glob.h usability... yes checking glob.h presence... yes checking for glob.h... yes checking grp.h usability... yes checking grp.h presence... yes checking for grp.h... yes checking pwd.h usability... yes checking pwd.h presence... yes checking for pwd.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for strings.h... (cached) yes checking sys/resource.h usability... yes checking sys/resource.h presence... yes checking for sys/resource.h... yes checking sys/select.h usability... yes checking sys/select.h presence... yes checking for sys/select.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for sys/stat.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking sys/times.h usability... yes checking sys/times.h presence... yes checking for sys/times.h... yes checking sys/utsname.h usability... yes checking sys/utsname.h presence... yes checking for sys/utsname.h... yes checking for unistd.h... (cached) yes checking utime.h usability... yes checking utime.h presence... yes checking for utime.h... yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking dl.h usability... no checking dl.h presence... no checking for dl.h... no checking elf.h usability... yes checking elf.h presence... yes checking for elf.h... yes checking features.h usability... yes checking features.h presence... yes checking for features.h... yes checking floatingpoint.h usability... no checking floatingpoint.h presence... no checking for floatingpoint.h... no checking langinfo.h usability... yes checking langinfo.h presence... yes checking for langinfo.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking stdalign.h usability... yes checking stdalign.h presence... yes checking for stdalign.h... yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking for inttypes.h... (cached) yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking stdbool.h usability... yes checking stdbool.h presence... yes checking for stdbool.h... yes checking for stdint.h... (cached) yes checking for string.h... (cached) yes checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for GNU C library with version >= 2... yes checking return type of signal handlers... void checking for uint64_t... yes checking for int64_t... yes checking for int_fast64_t... yes checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for gcc -std=gnu99 option to accept ISO C99... none needed checking for gcc -std=gnu99 option to accept ISO Standard C... (cached) none needed checking for inline... inline checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of double... 8 checking size of size_t... 8 checking size of long double... 16 checking whether we can compute C Make dependencies... yes, using $(CC) -MM checking whether gcc -std=gnu99 supports -c -o FILE.lo... yes checking for gcc -std=gnu99 option to support OpenMP... -fopenmp checking how to get verbose linking output from gfortran... -v checking for Fortran 77 libraries of gfortran... -L/usr/lib/gcc/x86_64-linux-gnu/8 -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/8/../../.. -lgfortran -lm -lquadmath checking how to get verbose linking output from gcc -std=gnu99... -v checking for C libraries of gcc -std=gnu99... -L/usr/lib/gcc/x86_64-linux-gnu/8 -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/8/../../.. -lgcc_s checking for dummy main to link with Fortran 77 libraries... none checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external names... yes checking whether gfortran appends extra underscores to external names... no checking whether mixed C/Fortran code can be run... yes checking whether gfortran and gcc -std=gnu99 agree on int and double... yes checking whether gfortran and gcc -std=gnu99 agree on double complex... yes checking for gfortran option to support OpenMP... -fopenmp checking whether g++ accepts -M for generating dependencies... yes checking for g++ option to support OpenMP... -fopenmp checking whether we can compute ObjC Make dependencies... no checking whether C runtime needs -D__NO_MATH_INLINES... no checking for xmkmf... no checking whether g++ supports C++98 features with -std=gnu++98... yes checking whether g++ supports C++11 features with -std=gnu++11... yes checking whether g++ supports C++14 features with -std=gnu++14... yes checking whether g++ supports C++17 features with -std=gnu++17... yes checking for option providing pthread_kill... none required checking whether POSIX threads are supported... yes checking for off_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether alloca is declared... yes checking whether expm1 exists and is declared... yes checking whether hypot exists and is declared... yes checking whether log1p exists and is declared... yes checking whether log1pl exists and is declared... yes checking whether log2 exists and is declared... yes checking whether log10 exists and is declared... yes checking whether nearbyint exists and is declared... yes checking whether nearbyintl exists and is declared... yes checking whether powl exists and is declared... yes checking whether rintl exists and is declared... yes checking whether va_copy exists and is declared... yes checking for isblank... yes checking sunmath.h usability... no checking sunmath.h presence... no checking for sunmath.h... no checking for cospi in -lsunmath... no checking for atanpi... no checking for atan2pi... no checking for cospi... no checking for exp10... yes checking for pown... no checking for sinpi... no checking for tanpi... no checking for __cospi... no checking for __sinpi... no checking for __tanpi... no checking for fseeko... yes checking for ftello... yes checking for matherr... no checking whether fcntl exists and is declared... yes checking whether getgrgid exists and is declared... yes checking whether getpwuid exists and is declared... yes checking whether kill exists and is declared... yes checking whether sigaction exists and is declared... yes checking whether sigaltstack exists and is declared... yes checking whether sigemptyset exists and is declared... yes checking whether fdopen exists and is declared... yes checking whether popen exists and is declared... yes checking whether getline exists and is declared... yes checking whether select exists and is declared... yes checking whether setenv exists and is declared... yes checking whether unsetenv exists and is declared... yes checking whether getrlimit exists and is declared... yes checking whether setrlimit exists and is declared... yes checking whether getrusage exists and is declared... yes checking whether getpriority exists and is declared... yes checking whether chmod exists and is declared... yes checking whether mkfifo exists and is declared... yes checking whether stat exists and is declared... yes checking whether umask exists and is declared... yes checking whether gettimeofday exists and is declared... yes checking whether utimes exists and is declared... yes checking whether times exists and is declared... yes checking whether gmtime_r exists and is declared... yes checking whether localtime_r exists and is declared... yes checking whether nl_langinfo exists and is declared... yes checking whether access exists and is declared... yes checking whether chdir exists and is declared... yes checking whether execv exists and is declared... yes checking whether ftruncate exists and is declared... yes checking whether getcwd exists and is declared... yes checking whether geteuid exists and is declared... yes checking whether getuid exists and is declared... yes checking whether link exists and is declared... yes checking whether readlink exists and is declared... yes checking whether symlink exists and is declared... yes checking whether sysconf exists and is declared... yes checking whether sched_setaffinity exists and is declared... yes checking whether sched_getaffinity exists and is declared... yes checking whether utime exists and is declared... yes checking whether utimensat exists and is declared... yes checking for clock_gettime in -lrt... yes checking whether clock_gettime exists and is declared... yes checking whether timespec_get exists and is declared... yes checking for putenv... yes checking whether putenv is declared... yes checking for vasprintf... yes checking whether vasprintf is declared... yes checking for mempcpy... yes checking for realpath... yes checking whether realpath is declared... yes checking whether glob exists and is declared... yes checking for dladdr... yes checking for dlsym... yes checking whether dladdr is declared... yes checking whether dlsym is declared... yes checking whether RTLD_DEFAULT is declared... yes checking whether RTLD_NEXT is declared... yes checking thread.h usability... no checking thread.h presence... no checking for thread.h... no checking whether thr_stksegment exists and is declared... no checking for isnan... yes checking whether isfinite is declared... yes checking whether isnan is declared... yes checking whether you have IEEE 754 floating-point arithmetic... yes checking whether putenv("FOO") can unset an environment variable... yes checking whether putenv("FOO=") can unset an environment variable... no checking for nl_langinfo and CODESET... yes checking for mkdtemp... yes checking for strdup... yes checking for strncasecmp... yes checking whether mkdtemp is declared... yes checking whether strdup is declared... yes checking whether strncasecmp is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for library containing xdr_string... none required checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether mktime sets errno... no checking whether mktime works correctly outside 1902-2037... yes checking complex.h usability... yes checking complex.h presence... yes checking for complex.h... yes checking for double complex... yes checking whether C99 double complex is supported... yes checking whether cabs exists and is declared... yes checking whether carg exists and is declared... yes checking whether cexp exists and is declared... yes checking whether clog exists and is declared... yes checking whether csqrt exists and is declared... yes checking whether cpow exists and is declared... yes checking whether ccos exists and is declared... yes checking whether csin exists and is declared... yes checking whether ctan exists and is declared... yes checking whether cacos exists and is declared... yes checking whether casin exists and is declared... yes checking whether catan exists and is declared... yes checking whether ccosh exists and is declared... yes checking whether csinh exists and is declared... yes checking whether ctanh exists and is declared... yes checking for working ctanh... yes checking whether 'struct tm' includes tm_zone... yes checking whether 'struct tm' includes tm_gmtoff... yes checking for dgemm_... no checking for ATL_xerbla in -latlas... no checking for dgemm_ in -lblas... yes checking for dgemm_ in -ldgemm... no checking for dgemm_ in -lblas... (cached) yes checking for dgemm_ in -lessl... no checking for dgemm_ in -lblas... (cached) yes checking whether double complex BLAS can be used... yes checking whether the BLAS is complete... yes checking for dpstrf_... no checking for dpstrf_ in -llapack... yes checking iconv.h usability... yes checking iconv.h presence... yes checking for iconv.h... yes checking for iconv... yes checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes checking whether iconv accepts "CP1252"... yes checking for iconvlist... no checking for iconv... yes checking for iconv declaration... extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking wchar.h usability... yes checking wchar.h presence... yes checking for wchar.h... yes checking wctype.h usability... yes checking wctype.h presence... yes checking for wctype.h... yes checking whether mbrtowc exists and is declared... yes checking whether wcrtomb exists and is declared... yes checking whether wcscoll exists and is declared... yes checking whether wcsftime exists and is declared... yes checking whether wcstod exists and is declared... yes checking whether mbstowcs exists and is declared... yes checking whether wcstombs exists and is declared... yes checking whether wctrans exists and is declared... yes checking whether iswblank exists and is declared... yes checking whether wctype exists and is declared... yes checking whether iswctype exists and is declared... yes checking for wctrans_t... yes checking for mbstate_t... yes checking for ICU... yes checking for X... libraries , headers checking for gethostbyname... yes checking for connect... yes checking for remove... yes checking for shmat... yes checking for IceConnectionNumber in -lICE... yes checking X11/Intrinsic.h usability... yes checking X11/Intrinsic.h presence... yes checking for X11/Intrinsic.h... yes checking for XtToolkitInitialize in -lXt... yes using X11 ... yes checking for KeySym... yes checking X11/Xmu/Atoms.h usability... no checking X11/Xmu/Atoms.h presence... no checking for X11/Xmu/Atoms.h... no checking whether pkg-config knows about cairo and pango... yes checking whether cairo including pango is >= 1.2 and works... yes checking for tclConfig.sh... no checking for tclConfig.sh in library (sub)directories... /usr/lib/tcl8.6/tclConfig.sh checking for tkConfig.sh... no checking for tkConfig.sh in library (sub)directories... /usr/lib/tk8.6/tkConfig.sh checking tcl.h usability... yes checking tcl.h presence... yes checking for tcl.h... yes checking tk.h usability... yes checking tk.h presence... yes checking for tk.h... yes checking whether compiling/linking Tcl/Tk code works... yes checking for BSD networking... yes checking rpc/types.h usability... yes checking rpc/types.h presence... yes checking for rpc/types.h... yes checking for rpc/xdr.h... yes checking for XDR support... yes checking for inflateInit2_ in -lz... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking if zlib version >= 1.2.5... yes checking whether zlib support suffices... yes checking mmap support for zlib... yes checking for BZ2_bzlibVersion in -lbz2... yes checking bzlib.h usability... yes checking bzlib.h presence... yes checking for bzlib.h... yes checking if bzip2 version >= 1.0.6... yes checking whether bzip2 support suffices... yes checking for lzma_version_number in -llzma... yes checking lzma.h usability... yes checking lzma.h presence... yes checking for lzma.h... yes checking if lzma version >= 5.0.3... yes checking for pcre_fullinfo in -lpcre... yes checking pcre.h usability... yes checking pcre.h presence... yes checking for pcre.h... yes checking pcre/pcre.h usability... no checking pcre/pcre.h presence... no checking for pcre/pcre.h... no checking if PCRE version >= 8.20, < 10.0 and has UTF-8 support... yes checking if PCRE version >= 8.32... yes checking whether PCRE support suffices... yes checking for pcre2-config... no checking for curl-config... /usr/bin/curl-config checking libcurl version ... 7.61.0 checking curl/curl.h usability... yes checking curl/curl.h presence... yes checking for curl/curl.h... yes checking if libcurl is version 7 and >= 7.22.0... yes checking if libcurl supports https... yes checking if jpeglib version >= 6b... yes checking for jpeg_destroy_compress in -ljpeg... yes checking if libpng version >= 1.2.7... yes checking for png_create_write_struct in -lpng... yes checking tiffio.h usability... yes checking tiffio.h presence... yes checking for tiffio.h... yes checking for TIFFOpen in -ltiff... yes checking whether leap seconds are treated according to POSIX... yes checking for inline... inline checking for sys/time.h... (cached) yes checking for stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for struct stat.st_atim.tv_nsec... yes checking whether struct stat.st_atim is of type struct timespec... yes checking for setitimer... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGEFILE_SOURCE value needed for large files... no checking whether KERN_USRSTACK sysctl is supported... no checking for visible __lib_stack_end... yes checking for paperconf... /usr/bin/paperconf checking whether we are using the GNU Fortran compiler... yes checking whether gfortran accepts -g... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for Fortran flag to compile .f90 files... none checking for Fortran flag to compile .f95 files... none checking for gfortran option to support OpenMP... -fopenmp checking whether NLS is requested... yes Configuring src/extra/intl directory checking for a thread-safe mkdir -p... /bin/mkdir -p checking whether we are using the GNU C Library 2 or newer... yes checking for ranlib... (cached) ranlib checking for simple visibility declarations... yes checking for stdint.h... yes checking for getpagesize... yes checking for working mmap... yes checking whether integer division by zero raises SIGFPE... yes checking for inttypes.h... yes checking for unsigned long long int... yes checking for inttypes.h... (cached) yes checking whether the inttypes.h PRIxNN macros are broken... no checking for ld used by gcc -std=gnu99... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking for shared library run path origin... done checking whether imported symbols can be declared weak... yes checking for multithread API to use... none checking argz.h usability... yes checking argz.h presence... yes checking for argz.h... yes checking for inttypes.h... (cached) yes checking for limits.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for getcwd... yes checking for getegid... yes checking for geteuid... yes checking for getgid... yes checking for getuid... yes checking for mempcpy... (cached) yes checking for munmap... yes checking for stpcpy... yes checking for strcasecmp... yes checking for strdup... (cached) yes checking for strtoul... yes checking for tsearch... yes checking for argz_count... yes checking for argz_stringify... yes checking for argz_next... yes checking for __fsetlocking... yes checking whether feof_unlocked is declared... yes checking whether fgets_unlocked is declared... yes checking for iconv... (cached) yes checking for iconv declaration... (cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... bison checking version of bison... 3.2.2, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... (cached) yes checking for setenv... yes checking for setlocale... yes checking for snprintf... yes checking for wcslen... yes checking whether _snprintf is declared... no checking whether _snwprintf is declared... no checking whether getc_unlocked is declared... yes checking for nl_langinfo and CODESET... (cached) yes checking for LC_MESSAGES... yes checking for CFPreferencesCopyAppValue... (cached) no checking for CFLocaleCopyCurrent... (cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/f77_f2c config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib R is now configured for x86_64-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -std=gnu99 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran 77 compiler: gfortran -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong Default C++ compiler: g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++98 compiler: g++ -std=gnu++98 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++11 compiler: g++ -std=gnu++11 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++14 compiler: g++ -std=gnu++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++17 compiler: g++ -std=gnu++17 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran 90/95 compiler: gfortran -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong Obj-C compiler: Interfaces supported: X11, tcltk External libraries: readline, BLAS(generic), LAPACK(generic), curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling Capabilities skipped: Options not enabled: shared BLAS Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/<>/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' mkdir -p -- ../../include make[4]: Entering directory '/<>/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c making xmalloc.d from xmalloc.c make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regerror.c -o regerror.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regexec.c -o regexec.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c xmalloc.c -o xmalloc.o ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o ranlib libtre.a make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[4]: Entering directory '/<>/src/appl' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interv.c -o interv.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c maxcol.c -o maxcol.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pretty.c -o pretty.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uncmin.c -o uncmin.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dchdc.f -o dchdc.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpbfa.f -o dpbfa.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpbsl.f -o dpbsl.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpoco.f -o dpoco.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpodi.f -o dpodi.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpofa.f -o dpofa.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dposl.f -o dposl.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrdc.f -o dqrdc.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrdc2.f -o dqrdc2.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrls.f -o dqrls.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrsl.f -o dqrsl.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrutl.f -o dqrutl.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dsvdc.f -o dsvdc.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dtrco.f -o dtrco.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[4]: Leaving directory '/<>/src/appl' make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Entering directory '/<>/src/nmath' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c df.c -o df.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rembedded.c -o Rembedded.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dynload.c -o dynload.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c system.c -o system.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-unix.c -o sys-unix.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-std.c -o sys-std.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making main.d from main.c making mapply.d from mapply.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Entering directory '/<>/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c CommandLineArgs.c -o CommandLineArgs.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rdynload.c -o Rdynload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Renviron.c -o Renviron.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RNG.c -o RNG.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c agrep.c -o agrep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep.c -o altrep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c apply.c -o apply.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arithmetic.c -o arithmetic.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c array.c -o array.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attrib.c -o attrib.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bind.c -o bind.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c builtin.c -o builtin.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c character.c -o character.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coerce.c -o coerce.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complex.c -o complex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c connections.c -o connections.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c context.c -o context.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cum.c -o cum.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dcf.c -o dcf.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c datetime.c -o datetime.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c debug.c -o debug.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deparse.c -o deparse.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devices.c -o devices.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dotcode.c -o dotcode.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dounzip.c -o dounzip.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dstruct.c -o dstruct.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c duplicate.c -o duplicate.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c edit.c -o edit.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c engine.c -o engine.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c envir.c -o envir.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c errors.c -o errors.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c eval.c -o eval.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c format.c -o format.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gevents.c -o gevents.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gram.c -o gram.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gram-ex.c -o gram-ex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c graphics.c -o graphics.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grep.c -o grep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c identical.c -o identical.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inlined.c -o inlined.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inspect.c -o inspect.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c internet.c -o internet.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c iosupport.c -o iosupport.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lapack.c -o lapack.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c list.c -o list.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c localecharset.c -o localecharset.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c logic.c -o logic.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c main.c -o main.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mapply.c -o mapply.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match.c -o match.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c memory.c -o memory.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c names.c -o names.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c objects.c -o objects.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c options.c -o options.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c paste.c -o paste.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c platform.c -o platform.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot.c -o plot.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plotmath.c -o plotmath.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c print.c -o print.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printarray.c -o printarray.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printvector.c -o printvector.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printutils.c -o printutils.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qsort.c -o qsort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c radixsort.c -o radixsort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c raw.c -o raw.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c registration.c -o registration.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c relop.c -o relop.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlocale.c -o rlocale.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c saveload.c -o saveload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c scan.c -o scan.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c seq.c -o seq.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c serialize.c -o serialize.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sort.c -o sort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c source.c -o source.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split.c -o split.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sprintf.c -o sprintf.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c startup.c -o startup.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subassign.c -o subassign.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subscript.c -o subscript.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subset.c -o subset.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c summary.c -o summary.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sysutils.c -o sysutils.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c times.c -o times.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unique.c -o unique.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_alab_her.c -o g_alab_her.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_cntrlify.c -o g_cntrlify.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_fontdb.c -o g_fontdb.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_her_glyph.c -o g_her_glyph.o gfortran -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c xxxpr.f -o xxxpr.o gcc -std=gnu99 -shared -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o match.o memory.o names.o objects.o options.o paste.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` ../extra/tre/libtre.a -lblas -lgfortran -lm -lquadmath -lreadline -lpcre -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n make[5]: Entering directory '/<>/src/main' mkdir -p -- /<>/bin/exec mkdir -p -- /<>/lib make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmain.c -o Rmain.o gcc -std=gnu99 -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/<>/src/main' make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making nanoftp.d from nanoftp.c making nanohttp.d from nanohttp.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/<>/src/modules/internet' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c internet.c -o internet.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanoftp.c -o nanoftp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanohttp.c -o nanohttp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sock.c -o sock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o nanoftp.o nanohttp.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/<>/src/modules/internet' mkdir -p -- /<>/modules make[6]: Leaving directory '/<>/src/modules/internet' make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/<>/src/modules/lapack' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Lapack.c -o Lapack.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o lapack.so Lapack.o -lR -llapack -lblas -lgfortran -lm -lquadmath make[6]: Entering directory '/<>/src/modules/lapack' make[6]: Leaving directory '/<>/src/modules/lapack' make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory '/<>/src/modules/X11' gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devX11.c -o devX11.o gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rotated.c -o rotated.o gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbitmap.c -o rbitmap.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lz -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dataentry.c -o dataentry.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' mkdir -p -- ../../library make[4]: Entering directory '/<>/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/<>/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c text.c -o text.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmd5.c -o Rmd5.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signals.c -o signals.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c install.c -o install.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getfmts.c -o getfmts.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c http.c -o http.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramLatex.c -o gramLatex.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramRd.c -o gramRd.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/<>/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' byte-compiling package 'compiler' make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' byte-compiling package 'base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' byte-compiling package 'tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/<>/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c io.c -o io.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c size.c -o size.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sock.c -o sock.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' byte-compiling package 'utils' make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/<>/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c axis_scales.c -o axis_scales.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chull.c -o chull.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devices.c -o devices.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devCairo.c -o devCairo.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPicTeX.c -o devPicTeX.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPS.c -o devPS.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devQuartz.c -o devQuartz.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' gcc -std=gnu99 -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cairoBM.c -o cairoBM.o gcc -std=gnu99 -shared -L"../../../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lz -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -L"../../../../../lib" -lR -lm make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' byte-compiling package 'grDevices' make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/<>/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base.c -o base.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c graphics.c -o graphics.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c par.c -o par.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot.c -o plot.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stem.c -o stem.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' byte-compiling package 'graphics' make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/<>/src/library/stats' mkdir -p -- ../../../library/stats/R make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kmeans.c -o kmeans.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ansari.c -o ansari.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bandwidths.c -o bandwidths.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chisqsim.c -o chisqsim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d2x2xk.c -o d2x2xk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fexact.c -o fexact.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kendall.c -o kendall.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ks.c -o ks.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c line.c -o line.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c smooth.c -o smooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c prho.c -o prho.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c swilk.c -o swilk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ksmooth.c -o ksmooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loessc.c -o loessc.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c monoSpl.c -o monoSpl.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isoreg.c -o isoreg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Srunmed.c -o Srunmed.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dblcen.c -o dblcen.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distance.c -o distance.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hclust-utils.c -o hclust-utils.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nls.c -o nls.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rWishart.c -o rWishart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HoltWinters.c -o HoltWinters.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PPsum.c -o PPsum.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arima.c -o arima.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c burg.c -o burg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c filter.c -o filter.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mAR.c -o mAR.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pacf.c -o pacf.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c starma.c -o starma.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c port.c -o port.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c family.c -o family.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sbart.c -o sbart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c approx.c -o approx.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loglin.c -o loglin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lowess.c -o lowess.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c massdist.c -o massdist.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lm.c -o lm.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complete_cases.c -o complete_cases.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cov.c -o cov.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deriv.c -o deriv.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fft.c -o fft.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fourier.c -o fourier.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c model.c -o model.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optimize.c -o optimize.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distn.c -o distn.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zeroin.c -o zeroin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcont.c -o rcont.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c influence.c -o influence.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c eureka.f -o eureka.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c stl.f -o stl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -msse2 -mfpmath=sse -c portsrc.f -o portsrc.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c lminfl.f -o lminfl.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' byte-compiling package 'stats' make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/<>/src/library/datasets' make[5]: Leaving directory '/<>/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/<>/src/library/methods' mkdir -p -- ../../../library/methods/R make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c do_substitute_direct.c -o do_substitute_direct.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slot.c -o slot.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c class_support.c -o class_support.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tests.c -o tests.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' byte-compiling 'methods' initializing class and method definitions ... done make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/<>/src/library/grid' mkdir -p -- ../../../library/grid/R make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making matrix.d from matrix.c making register.d from register.c making state.d from state.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gpar.c -o gpar.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grid.c -o grid.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c just.c -o just.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c layout.c -o layout.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c matrix.c -o matrix.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c register.c -o register.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c state.c -o state.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unit.c -o unit.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c viewport.c -o viewport.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o grid.so gpar.o grid.o just.o layout.o matrix.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' byte-compiling package 'grid' make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/<>/src/library/splines' mkdir -p -- ../../../library/splines/R make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' making splines.d from splines.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' byte-compiling package 'splines' make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/<>/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' byte-compiling package 'stats4' make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/<>/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk.c -o tcltk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -L/usr/lib/x86_64-linux-gnu -ltk8.6 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory '/<>/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' byte-compiling package 'tcltk' make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/<>/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rngstream.c -o rngstream.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fork.c -o fork.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' byte-compiling package 'parallel' make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' you should 'make docs' now ... make[1]: Leaving directory '/<>' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ R_GZIPCMD="/bin/gzip -n" \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory '/<>/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/<>/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/<>/src/include' Copying source files make[2]: Entering directory '/<>/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pt.c -o pt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qt.c -o qt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rt.c -o rt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnt.c -o dnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pexp.c -o pexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qexp.c -o qexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rexp.c -o rexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c phyper.c -o phyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnf.c -o pnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnt.c -o pnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnf.c -o qnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnt.c -o qnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c toms708.c -o toms708.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c signrank.c -o signrank.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -std=gnu99 -shared -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[2]: Leaving directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c signrank.c -o signrank.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory '/<>/src/nmath/standalone' make[1]: Leaving directory '/<>/src/nmath/standalone' R_GZIPCMD="/bin/gzip -n" \ /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' make[5]: Leaving directory '/<>/src/library/datasets' make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' you should 'make docs' now ... make[2]: Entering directory '/<>/doc' creating doc/NEWS creating doc/NEWS.pdf make[3]: Entering directory '/<>/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory '/<>/doc/html' make[4]: Leaving directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' installing parsed Rd make[4]: Entering directory '/<>/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' building/updating package metadata ... make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' writing package indices make[4]: Entering directory '/<>/src/library' make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' /usr/bin/make javaconf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' make[5]: Leaving directory '/<>/src/library/datasets' make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 11.0.1 Java home path : /usr/lib/jvm/default-java Java compiler : /usr/lib/jvm/default-java/bin/javac Java headers gen.: Java archive tool: /usr/lib/jvm/default-java/bin/jar trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm make[3]: Entering directory '/tmp/Rjavareconf.pk7wUz' gcc -std=gnu99 -I"/<>/include" -DNDEBUG -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conftest.c -o conftest.o gcc -std=gnu99 -shared -L/<>/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/<>/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.pk7wUz' JAVA_HOME : /usr/lib/jvm/default-java Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /<> Done. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' touch make-arch-stamp *** make-indep *** /usr/bin/make -k docs make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' make[5]: Leaving directory '/<>/src/library/datasets' make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' make[4]: Entering directory '/<>/doc/html' make[4]: Leaving directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' installing parsed Rd make[4]: Entering directory '/<>/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' building/updating package metadata ... make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' writing package indices make[4]: Entering directory '/<>/src/library' make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' (cd doc/manual && /usr/bin/make html) make[1]: Entering directory '/<>/doc/manual' make[2]: Entering directory '/<>/doc/html' make[2]: Leaving directory '/<>/doc/html' make[1]: Leaving directory '/<>/doc/manual' /usr/bin/make info make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-admin.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-lang.texi make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[1]: Leaving directory '/<>' (cd doc/manual && \ /usr/bin/make refman.pdf R-admin.pdf R-data.pdf R-exts.pdf \ R-FAQ.pdf R-intro.pdf R-ints.pdf R-lang.pdf) make[1]: Entering directory '/<>/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... Converting parsed Rd's to LaTeX ........................................... collecting LaTeX docs for package 'tools' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'utils' ... Converting parsed Rd's to LaTeX ............. collecting LaTeX docs for package 'grDevices' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'graphics' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'stats' ... Converting parsed Rd's to LaTeX .............................. collecting LaTeX docs for package 'datasets' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'methods' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'grid' ... Converting parsed Rd's to LaTeX ......... collecting LaTeX docs for package 'splines' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'stats4' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'tcltk' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'compiler' ... Converting parsed Rd's to LaTeX collecting LaTeX docs for package 'parallel' ... Converting parsed Rd's to LaTeX . PDF/LaTeX documentation: reference index ... This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file refman.idx No file refman.aux. (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) No file refman.ind. (./refman.aux) Package rerunfilecheck Warning: File `refman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on refman.pdf (2171 pages, 5420780 bytes). Transcript written on refman.log. This is makeindex, version 2.15 [TeX Live 2019/dev] (kpathsea + Thai support). Scanning input file refman.idx.................done (13579 entries accepted, 34 rejected). Sorting entries....................................................................................................................................................done (217268 comparisons). Generating output file refman.ind................done (13394 lines written, 50 warnings). Output written in refman.ind. Transcript written in refman.ilg. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file refman.idx (./refman.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] (./refman.toc (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]) [30] (./base-pkg.tex Chapter 1. [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) (./refman.ind [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Overfull \hbox (33.3567pt too wide) in paragraph at lines 8658--8660 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2218] [2219] [2220] [2221] [2222] [2223] Overfull \hbox (20.8567pt too wide) in paragraph at lines 9958--9960 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2224] [2225] [2226] [2227] [2228] [2229] [2230] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11665--11667 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 11667--11669 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results [2231] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11669--11671 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]) (./refman.aux) Package rerunfilecheck Warning: File `refman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on refman.pdf (2271 pages, 6099983 bytes). Transcript written on refman.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file refman.idx (./refman.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./refman.out) (./refman.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] (./refman.toc (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]) [30] (./base-pkg.tex Chapter 1. [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) (./refman.ind [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Overfull \hbox (33.3567pt too wide) in paragraph at lines 8658--8660 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2218] [2219] [2220] [2221] [2222] [2223] Overfull \hbox (20.8567pt too wide) in paragraph at lines 9958--9960 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2224] [2225] [2226] [2227] [2228] [2229] [2230] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11665--11667 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 11667--11669 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results [2231] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11669--11671 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]) (./refman.aux) LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on refman.pdf (2271 pages, 6101271 bytes). Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-admin.t2d/pdf/xtr/R-ad min.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1888--1900 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2035--2035 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2229--2240 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2702--2702 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2722--2722 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2723--2723 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3355--3355 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3626--3626 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5036--5036 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5042--5042 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5134--5134 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5172--5172 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5206--5206 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5311--5316 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run Overfull \hbox (20.69044pt too wide) in paragraph at lines 5335--5335 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5504--5504 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] [74] Underfull \hbox (badness 10000) in paragraph at lines 5613--5619 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (26.43913pt too wide) in paragraph at lines 5628--5628 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] Underfull \hbox (badness 10000) in paragraph at lines 5680--5684 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] [76] [77] [78] Appendix D [79] [80] [81] (Function and variable index) [82] No file R-admin.vrs. (Concept index) [83] No file R-admin.cps. (Environment variable index) [84] No file R-admin.ens. [85] ) (see the transcript file for additional information) Output written on R-admin.pdf (88 pages, 483693 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-admin.t2d/pdf/xtr/R-ad min.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-admin.toc [-1] [-2]) [-3] (/<>/doc/manual/R-admin.toc) (/<>/doc/manual/R-admin.toc) Chapter 1 (/<>/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1888--1900 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2035--2035 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2229--2240 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2702--2702 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2722--2722 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2723--2723 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3355--3355 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3626--3626 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5036--5036 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5042--5042 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5134--5134 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5172--5172 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5206--5206 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5311--5316 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run Overfull \hbox (20.69044pt too wide) in paragraph at lines 5335--5335 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5504--5504 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] [74] Underfull \hbox (badness 10000) in paragraph at lines 5613--5619 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (26.43913pt too wide) in paragraph at lines 5628--5628 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] Underfull \hbox (badness 10000) in paragraph at lines 5680--5684 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] [76] [77] [78] Appendix D [79] [80] [81] (Function and variable index) [82] (Concept index) [83] (Environment variable index) [84] [85] ) (see the transcript file for additional information) Output written on R-admin.pdf (90 pages, 529199 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-admin.t2d/pdf/xtr/R-ad min.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-admin.toc [-1] [-2]) [-3] (/<>/doc/manual/R-admin.toc) (/<>/doc/manual/R-admin.toc) Chapter 1 (/<>/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1888--1900 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2035--2035 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2229--2240 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2702--2702 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2722--2722 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2723--2723 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3355--3355 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3626--3626 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5036--5036 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5042--5042 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5134--5134 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5172--5172 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5206--5206 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5311--5316 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run Overfull \hbox (20.69044pt too wide) in paragraph at lines 5335--5335 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5504--5504 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] [74] Underfull \hbox (badness 10000) in paragraph at lines 5613--5619 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (26.43913pt too wide) in paragraph at lines 5628--5628 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] Underfull \hbox (badness 10000) in paragraph at lines 5680--5684 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] [76] [77] [78] Appendix D [79] [80] [81] (Function and variable index) [82] (Concept index) [83] (Environment variable index) [84] [85] ) (see the transcript file for additional information) Output written on R-admin.pdf (90 pages, 529202 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-dat a.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 87--87 @texttt package=DBI[]@textrm )[][]| Overfull \hbox (8.53186pt too wide) in paragraph at lines 88--88 [][]@textbf dataframes2xls Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt org / Overfull \hbox (67.73643pt too wide) in paragraph at lines 88--88 @texttt package=dataframes2xls[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 89--89 [][]@textbf foreign Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 89--89 @texttt package=foreign[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 90--90 [][]@textbf gdata Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 90--90 @texttt package=gdata[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 91--91 [][]@textbf ncdf4 Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 101--101 @texttt package=RSQLite[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 103--103 [][]@textbf WriteXLS Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt org / Overfull \hbox (33.24431pt too wide) in paragraph at lines 103--103 @texttt package=WriteXLS[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 104--104 [][]@textbf XLConnect Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt org / Overfull \hbox (38.993pt too wide) in paragraph at lines 104--104 @texttt package=XLConnect[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 105--105 [][]@textbf XML Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] No file R-data.vrs. (Concept index) [35] No file R-data.cps. [36] ) (see the transcript file for additional information) Output written on R-data.pdf (39 pages, 272450 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-dat a.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-data.toc [-1]) [-2] (/<>/doc/manual/R-data.toc) (/<>/doc/manual/R-data.toc) (Acknowledgements) (/<>/doc/manual/R-data.aux) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 87--87 @texttt package=DBI[]@textrm )[][]| Overfull \hbox (8.53186pt too wide) in paragraph at lines 88--88 [][]@textbf dataframes2xls Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt org / Overfull \hbox (67.73643pt too wide) in paragraph at lines 88--88 @texttt package=dataframes2xls[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 89--89 [][]@textbf foreign Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 89--89 @texttt package=foreign[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 90--90 [][]@textbf gdata Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 90--90 @texttt package=gdata[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 91--91 [][]@textbf ncdf4 Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 101--101 @texttt package=RSQLite[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 103--103 [][]@textbf WriteXLS Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt org / Overfull \hbox (33.24431pt too wide) in paragraph at lines 103--103 @texttt package=WriteXLS[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 104--104 [][]@textbf XLConnect Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt org / Overfull \hbox (38.993pt too wide) in paragraph at lines 104--104 @texttt package=XLConnect[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 105--105 [][]@textbf XML Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] [35] (Concept index) [36] [37] Overfull \vbox (1.73251pt too high) has occurred while \output is active [38] ) (see the transcript file for additional information) Output written on R-data.pdf (42 pages, 312482 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-dat a.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-data.toc [-1]) [-2] (/<>/doc/manual/R-data.toc) (/<>/doc/manual/R-data.toc) (Acknowledgements) (/<>/doc/manual/R-data.aux) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 87--87 @texttt package=DBI[]@textrm )[][]| Overfull \hbox (8.53186pt too wide) in paragraph at lines 88--88 [][]@textbf dataframes2xls Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt org / Overfull \hbox (67.73643pt too wide) in paragraph at lines 88--88 @texttt package=dataframes2xls[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 89--89 [][]@textbf foreign Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 89--89 @texttt package=foreign[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 90--90 [][]@textbf gdata Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 90--90 @texttt package=gdata[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 91--91 [][]@textbf ncdf4 Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 101--101 @texttt package=RSQLite[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 103--103 [][]@textbf WriteXLS Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt org / Overfull \hbox (33.24431pt too wide) in paragraph at lines 103--103 @texttt package=WriteXLS[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 104--104 [][]@textbf XLConnect Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt org / Overfull \hbox (38.993pt too wide) in paragraph at lines 104--104 @texttt package=XLConnect[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 105--105 [][]@textbf XML Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] [35] (Concept index) [36] [37] Overfull \vbox (1.73251pt too high) has occurred while \output is active [38] ) (see the transcript file for additional information) Output written on R-data.pdf (42 pages, 312484 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-ext s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1917--1917 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2271--2271 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] [29] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2273--2273 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2415--2415 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] Underfull \hbox (badness 10000) in paragraph at lines 2527--2529 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [33] [34] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2654--2654 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [35] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2799--2801 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4635--4635 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4637--4637 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4638--4638 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4653--4653 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4951--4951 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5157--5157 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5158--5158 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [67] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5252--5252 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] [68] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5284--5284 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5318--5318 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [69] [70] [71] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5546--5546 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [72] [73] [74] Chapter 2 [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] Underfull \hbox (badness 10000) in paragraph at lines 6806--6813 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [89] [90] [91] [92] Underfull \hbox (badness 10000) in paragraph at lines 7125--7129 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7726--7726 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [102] [103] [104] Chapter 4 [105] [106] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8103--8103 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [108] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8144--8144 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [109] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8248--8248 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [110] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8278--8287 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [111] [112] [113] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8555--8556 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [114] [115] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8688--8688 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8716--8718 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8729--8729 []@texttt null,object-size,pointer-overflow,return,returns-nonnull-attribute,s hift,[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8730--8730 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [116] Underfull \hbox (badness 8151) in paragraph at lines 8777--8781 []@textrm From GCC 8 @texttt signed-integer-overflow[] @textrm is no longer a d e-fault part of Underfull \hbox (badness 10000) in paragraph at lines 8777--8781 @texttt -fsanitize=undefined[]@textrm , but can be spec-i-fied sep-a-rately. It adds op-tions [117] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8847--8847 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [118] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8896--8896 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8899--8899 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [119] Overfull \hbox (26.43913pt too wide) in paragraph at lines 8978--8978 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [120] [121] Chapter 5 [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] Overfull \hbox (30.87428pt too wide) in paragraph at lines 9946--9946 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 9995--9995 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10574--10574 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11346--11346 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [151] Underfull \hbox (badness 10000) in paragraph at lines 11407--11409 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [152] [153] [154] [155] [156] [157] [158] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11929--11929 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [159] [160] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12052--12052 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12057--12057 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12112--12112 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12124--12124 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [162] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12223--12223 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [163] [164] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12359--12359 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [165] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12440--12440 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [166] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12528--12528 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 10000) in paragraph at lines 13688--13692 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [180] [181] Warning: unbalanced parentheses in @def... [182] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13899--13899 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [183] [184] [185] [186] [187] Chapter 7 [188] [189] Chapter 8 [190] [191] [192] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14647--14647 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [193] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14690--14690 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14706--14706 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 14949--14956 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [198] [199] [200] [201] [202] Underfull \hbox (badness 10000) in paragraph at lines 15332--15336 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [203] No file R-exts.vrs. (Concept index) [204] No file R-exts.cps. [205] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl Output written on R-exts.pdf (208 pages, 900141 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-ext s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/<>/doc/manual/R-exts.toc) (/<>/doc/manual/R-exts.toc) (Acknowledgements) (/<>/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1917--1917 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2271--2271 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] [29] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2273--2273 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2415--2415 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] Underfull \hbox (badness 10000) in paragraph at lines 2527--2529 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [33] [34] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2654--2654 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [35] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2799--2801 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4635--4635 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4637--4637 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4638--4638 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4653--4653 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4951--4951 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5157--5157 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5158--5158 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [67] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5252--5252 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] [68] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5284--5284 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5318--5318 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [69] [70] [71] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5546--5546 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [72] [73] [74] Chapter 2 [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] Underfull \hbox (badness 10000) in paragraph at lines 6806--6813 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [89] [90] [91] [92] Underfull \hbox (badness 10000) in paragraph at lines 7125--7129 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7726--7726 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [102] [103] [104] Chapter 4 [105] [106] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8103--8103 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [108] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8144--8144 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [109] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8248--8248 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [110] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8278--8287 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [111] [112] [113] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8555--8556 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [114] [115] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8688--8688 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8716--8718 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8729--8729 []@texttt null,object-size,pointer-overflow,return,returns-nonnull-attribute,s hift,[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8730--8730 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [116] Underfull \hbox (badness 8151) in paragraph at lines 8777--8781 []@textrm From GCC 8 @texttt signed-integer-overflow[] @textrm is no longer a d e-fault part of Underfull \hbox (badness 10000) in paragraph at lines 8777--8781 @texttt -fsanitize=undefined[]@textrm , but can be spec-i-fied sep-a-rately. It adds op-tions [117] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8847--8847 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [118] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8896--8896 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8899--8899 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [119] Overfull \hbox (26.43913pt too wide) in paragraph at lines 8978--8978 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [120] [121] Chapter 5 [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] Overfull \hbox (30.87428pt too wide) in paragraph at lines 9946--9946 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 9995--9995 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10574--10574 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11346--11346 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [151] Underfull \hbox (badness 10000) in paragraph at lines 11407--11409 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [152] [153] [154] [155] [156] [157] [158] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11929--11929 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [159] [160] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12052--12052 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12057--12057 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12112--12112 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12124--12124 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [162] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12223--12223 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [163] [164] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12359--12359 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [165] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12440--12440 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [166] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12528--12528 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 10000) in paragraph at lines 13688--13692 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [180] Warning: unbalanced parentheses in @def... [181] [182] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13899--13899 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [183] [184] [185] [186] [187] Chapter 7 [188] [189] Chapter 8 [190] [191] [192] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14647--14647 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [193] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14690--14690 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14706--14706 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 14949--14956 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [198] [199] [200] [201] [202] Underfull \hbox (badness 10000) in paragraph at lines 15332--15336 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [203] [204] [205] [206] (Concept index) [207] [208] [209] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl < /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmss10.pfb> Output written on R-exts.pdf (216 pages, 964248 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-ext s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/<>/doc/manual/R-exts.toc) (/<>/doc/manual/R-exts.toc) (Acknowledgements) (/<>/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1917--1917 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2271--2271 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] [29] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2273--2273 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2415--2415 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] Underfull \hbox (badness 10000) in paragraph at lines 2527--2529 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [33] [34] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2654--2654 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [35] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2799--2801 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4635--4635 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4637--4637 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4638--4638 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4653--4653 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4951--4951 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5157--5157 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5158--5158 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [67] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5252--5252 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] [68] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5284--5284 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5318--5318 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [69] [70] [71] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5546--5546 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [72] [73] [74] Chapter 2 [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] Underfull \hbox (badness 10000) in paragraph at lines 6806--6813 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [89] [90] [91] [92] Underfull \hbox (badness 10000) in paragraph at lines 7125--7129 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [93] [94] Chapter 3 [95] [96] [97] [98] [99] [100] [101] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7726--7726 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [102] [103] [104] Chapter 4 [105] [106] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8103--8103 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [108] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8144--8144 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [109] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8248--8248 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [110] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8278--8287 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [111] [112] [113] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8555--8556 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [114] [115] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8688--8688 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8716--8718 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8729--8729 []@texttt null,object-size,pointer-overflow,return,returns-nonnull-attribute,s hift,[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8730--8730 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [116] Underfull \hbox (badness 8151) in paragraph at lines 8777--8781 []@textrm From GCC 8 @texttt signed-integer-overflow[] @textrm is no longer a d e-fault part of Underfull \hbox (badness 10000) in paragraph at lines 8777--8781 @texttt -fsanitize=undefined[]@textrm , but can be spec-i-fied sep-a-rately. It adds op-tions [117] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8847--8847 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [118] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8896--8896 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8899--8899 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [119] Overfull \hbox (26.43913pt too wide) in paragraph at lines 8978--8978 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [120] [121] Chapter 5 [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] Overfull \hbox (30.87428pt too wide) in paragraph at lines 9946--9946 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 9995--9995 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10574--10574 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11346--11346 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [151] Underfull \hbox (badness 10000) in paragraph at lines 11407--11409 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [152] [153] [154] [155] [156] [157] [158] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11929--11929 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [159] [160] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12052--12052 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12057--12057 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12112--12112 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12124--12124 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [162] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12223--12223 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [163] [164] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12359--12359 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [165] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12440--12440 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [166] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12528--12528 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] Underfull \hbox (badness 10000) in paragraph at lines 13688--13692 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [180] Warning: unbalanced parentheses in @def... [181] [182] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13899--13899 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [183] [184] [185] [186] [187] Chapter 7 [188] [189] Chapter 8 [190] [191] [192] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14647--14647 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [193] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14690--14690 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14706--14706 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 14949--14956 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [198] [199] [200] [201] [202] Underfull \hbox (badness 10000) in paragraph at lines 15332--15336 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [203] [204] [205] [206] (Concept index) [207] [208] [209] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl < /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmss10.pfb> Output written on R-exts.pdf (216 pages, 964298 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ. texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] Writing index file R-FAQ.fn [40] [41] [42] Underfull \hbox (badness 10000) in paragraph at lines 3389--3397 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [43] Chapter 8 [44] Chapter 9 [45] [46] Chapter 10 [47] [48] [49] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 365574 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ. texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/<>/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/<>/doc/manual/R-FAQ.toc) (/<>/doc/manual/R-FAQ.toc) Chapter 1 (/<>/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] Writing index file R-FAQ.fn [40] [41] [42] Underfull \hbox (badness 10000) in paragraph at lines 3389--3397 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [43] Chapter 8 [44] Chapter 9 [45] [46] Chapter 10 [47] [48] [49] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (53 pages, 382056 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ. texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/<>/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/<>/doc/manual/R-FAQ.toc) (/<>/doc/manual/R-FAQ.toc) Chapter 1 (/<>/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] Writing index file R-FAQ.fn [40] [41] [42] Underfull \hbox (badness 10000) in paragraph at lines 3389--3397 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [43] Chapter 8 [44] Chapter 9 [45] [46] Chapter 10 [47] [48] [49] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (53 pages, 382058 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-in tro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual /images/hist.pdf> >/doc/manual/images /ecdf.pdf> [38] >/doc/manual/images/Q Q.pdf> [39] >/doc/manual/images/ice.p df> [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual /images/fig11.pdf> [77] >/doc/manual/ images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] No file R-intro.vrs. Appendix E [102] No file R-intro.cps. Appendix F [103] [104] ) (see the transcript file for additional information) Output written on R-intro.pdf (107 pages, 576022 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-in tro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/<>/doc/manual/R-intro.toc) (/<>/doc/manual/R-intro.toc) (Preface) (/<>/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual /images/hist.pdf> >/doc/manual/images /ecdf.pdf> [38] >/doc/manual/images/Q Q.pdf> [39] >/doc/manual/images/ice.p df> [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual /images/fig11.pdf> [77] >/doc/manual/ images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] [102] [103] Appendix E [104] [105] Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 625682 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-in tro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/<>/doc/manual/R-intro.toc) (/<>/doc/manual/R-intro.toc) (Preface) (/<>/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual /images/hist.pdf> >/doc/manual/images /ecdf.pdf> [38] >/doc/manual/images/Q Q.pdf> [39] >/doc/manual/images/ice.p df> [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual /images/fig11.pdf> [77] >/doc/manual/ images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] [102] [103] Appendix E [104] [105] Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 625753 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-int s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4031--4039 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] [65] (Function and variable index) [66] [67] No file R-ints.vrs. (Concept index) [68] No file R-ints.cps. [69] ) (see the transcript file for additional information) Output written on R-ints.pdf (72 pages, 397188 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-int s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-ints.toc [-1] [-2]) [-3] (/<>/doc/manual/R-ints.toc) (/<>/doc/manual/R-ints.toc) Chapter 1 (/<>/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4031--4039 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] [65] (Function and variable index) [66] [67] [68] (Concept index) [69] [70] ) (see the transcript file for additional information) Output written on R-ints.pdf (75 pages, 446922 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-int s.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-ints.toc [-1] [-2]) [-3] (/<>/doc/manual/R-ints.toc) (/<>/doc/manual/R-ints.toc) Chapter 1 (/<>/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4031--4039 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4031--4039 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] [65] (Function and variable index) [66] [67] [68] (Concept index) [69] [70] ) (see the transcript file for additional information) Output written on R-ints.pdf (75 pages, 446914 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lan g.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] No file R-lang.vrs. (Concept Index) [60] No file R-lang.cps. Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (65 pages, 329888 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lan g.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-lang.toc [-1] [-2]) [-3] (/<>/doc/manual/R-lang.toc) (/<>/doc/manual/R-lang.toc) Chapter 1 (/<>/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] [60] (Concept Index) [61] [62] Overfull \vbox (1.73251pt too high) has occurred while \output is active Overfull \vbox (1.73251pt too high) has occurred while \output is active Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 378960 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lan g.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/li b/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-lang.toc [-1] [-2]) [-3] (/<>/doc/manual/R-lang.toc) (/<>/doc/manual/R-lang.toc) Chapter 1 (/<>/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] [60] (Concept Index) [61] [62] Overfull \vbox (1.73251pt too high) has occurred while \output is active Overfull \vbox (1.73251pt too high) has occurred while \output is active Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 378954 bytes). Transcript written on R-lang.log. make[1]: Leaving directory '/<>/doc/manual' /usr/bin/make -k pdf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' PDF/LaTeX documentation: full reference index ... This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file fullrefman.idx No file fullrefman.aux. (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) No file fullrefman.ind. (./fullrefman.aux) Package rerunfilecheck Warning: File `fullrefman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on fullrefman.pdf (2171 pages, 5420780 bytes). Transcript written on fullrefman.log. This is makeindex, version 2.15 [TeX Live 2019/dev] (kpathsea + Thai support). Scanning input file fullrefman.idx.................done (13579 entries accepted, 34 rejected). Sorting entries....................................................................................................................................................done (217268 comparisons). Generating output file fullrefman.ind................done (13394 lines written, 50 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file fullrefman.idx (./fullrefman.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./fullrefman.out) (./fullrefman.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] (./fullrefman.toc (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]) [30] (./base-pkg.tex Chapter 1. [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) (./fullrefman.ind [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Overfull \hbox (33.3567pt too wide) in paragraph at lines 8658--8660 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2218] [2219] [2220] [2221] [2222] [2223] Overfull \hbox (20.8567pt too wide) in paragraph at lines 9958--9960 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2224] [2225] [2226] [2227] [2228] [2229] [2230] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11665--11667 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 11667--11669 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results [2231] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11669--11671 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]) (./fullrefman.aux) Package rerunfilecheck Warning: File `fullrefman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on fullrefman.pdf (2271 pages, 6099983 bytes). Transcript written on fullrefman.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 366. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 366. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file fullrefman.idx (./fullrefman.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (./fullrefman.out) (./fullrefman.out) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] (./fullrefman.toc (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29]) [30] (./base-pkg.tex Chapter 1. [1] [2] Underfull \hbox (badness 2547) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 It equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 152--159 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] Underfull \hbox (badness 3977) in paragraph at lines 386--389 []\T1/ptm/m/n/10 logical: should \T1/zi4/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1922--1922 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \vbox (badness 10000) has occurred while \output is active [51] [52] [53] [54] [55] [56] [57] Underfull \hbox (badness 10000) in paragraph at lines 3656--3658 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [58] [59] [60] [61] Overfull \hbox (6.42029pt too wide) in paragraph at lines 3897--3897 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [62] [63] Underfull \hbox (badness 1057) in paragraph at lines 4005--4008 [][][]\T1/zi4/m/n/10 is.language[][][]() \T1/ptm/m/n/10 is also true for calls (but also for [][]\T1/zi4/m/n/10 symbol[][][]\T1/ptm/m/n/10 s and [][]\T1/zi4/m /n/10 expression[][][]\T1/ptm/m/n/10 s where [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] Underfull \hbox (badness 2521) in paragraph at lines 4888--4890 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6041--6041 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [95] [96] [97] Underfull \hbox (badness 2096) in paragraph at lines 6229--6242 []\T1/ptm/m/n/10 New restarts for \T1/zi4/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in [98] [99] [100] Overfull \hbox (56.34871pt too wide) in paragraph at lines 6438--6440 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult", "internal", "wininet", "libcurl")\T1/ptm/m/n/10 : [101] [102] Underfull \hbox (badness 10000) in paragraph at lines 6580--6583 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [103] [104] Underfull \hbox (badness 1442) in paragraph at lines 6762--6768 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- move a Underfull \hbox (badness 1248) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 Byte Or-der Mark if present (which it of-ten is for files and we b-pages gen-er-ated by Mi- Underfull \hbox (badness 2080) in paragraph at lines 6762--6768 \T1/ptm/m/n/10 crosoft ap-pli-ca-tions). If a BOM is re-quired (it is not rec-o m-mended) when writ-ing it [105] Underfull \hbox (badness 3568) in paragraph at lines 6824--6831 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [106] [107] Underfull \vbox (badness 10000) has occurred while \output is active [108] Underfull \vbox (badness 10000) has occurred while \output is active [109] [110] Underfull \hbox (badness 1077) in paragraph at lines 7141--7147 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7141--7147 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [111] [112] [113] [114] [115] [116] Underfull \hbox (badness 2096) in paragraph at lines 7482--7486 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [117] [118] Underfull \hbox (badness 3000) in paragraph at lines 7575--7577 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0, \T1/zi4/m/n/10 getOption("OutDec") \T1/ptm/m/n/10 is con-sulted when la-bels are con-structed for Underfull \hbox (badness 2351) in paragraph at lines 7600--7603 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [119] [120] [121] [122] Underfull \hbox (badness 10000) in paragraph at lines 7855--7865 []\T1/zi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [123] Underfull \hbox (badness 4479) in paragraph at lines 7926--7936 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] Underfull \hbox (badness 1394) in paragraph at lines 9685--9690 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/zi4/m/n/10 difftime \T1/ptm/m/n/10 with [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 1194) in paragraph at lines 10030--10035 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 dontCheck \T1/ptm/m/n/10 func-tion is the s ame as [][]\T1/zi4/m/n/10 identity[][][]\T1/ptm/m/n/10 , but is in-ter-preted b y \T1/zi4/m/n/10 R CMD check Underfull \hbox (badness 1231) in paragraph at lines 10030--10035 \T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of \T1/z i4/m/n/10 x\T1/ptm/m/n/10 . Cur-rently this is only used by [156] [157] [158] Underfull \hbox (badness 1735) in paragraph at lines 10235--10239 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [159] [160] [161] [162] [163] [164] Underfull \hbox (badness 2150) in paragraph at lines 10658--10661 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 10672--10680 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [165] Underfull \hbox (badness 2735) in paragraph at lines 10701--10708 []\T1/ptm/m/n/10 Except for fac-tors, log-i-cal and raw vec-tors the de-fault \ T1/zi4/m/n/10 nmax = NA \T1/ptm/m/n/10 is equiv-a-lent to [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] Underfull \hbox (badness 4569) in paragraph at lines 11781--11785 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11781--11785 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [182] [183] [184] [185] [186] [187] [188] [189] [190] Underfull \hbox (badness 2698) in paragraph at lines 12358--12367 []\T1/ptm/m/n/10 Both \T1/zi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/zi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 12358--12367 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [191] [192] [193] [194] [195] Underfull \vbox (badness 3803) has occurred while \output is active [196] [197] [198] [199] [200] Underfull \hbox (badness 6236) in paragraph at lines 13017--13020 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 iconv \T1/ptm/m/n/10 this will give the im- ple-men-ta-tion as well as the ver-sion, for ex-am-ple [201] [202] [203] [204] [205] [206] Underfull \hbox (badness 2253) in paragraph at lines 13439--13441 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [207] Underfull \hbox (badness 1565) in paragraph at lines 13510--13514 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [208] Underfull \hbox (badness 10000) in paragraph at lines 13554--13556 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [209] [210] Underfull \hbox (badness 1466) in paragraph at lines 13694--13697 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [211] [212] Underfull \hbox (badness 10000) in paragraph at lines 13813--13817 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13824--13827 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [213] [214] [215] [216] [217] Underfull \hbox (badness 3965) in paragraph at lines 14106--14110 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [218] [219] [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] Underfull \hbox (badness 4429) in paragraph at lines 14868--14871 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [230] Underfull \hbox (badness 10000) in paragraph at lines 14968--14970 []\T1/ptm/m/n/10 If you set \T1/zi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/zi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 14974--14978 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [231] Underfull \hbox (badness 10000) in paragraph at lines 15013--15017 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use Underfull \hbox (badness 4156) in paragraph at lines 15013--15017 \T1/ptm/m/n/10 within [][]\T1/zi4/m/n/10 print[][][] \T1/ptm/m/n/10 meth-ods in pack-ages which might be used with ear-lier ver-sions: use [232] [233] [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 2452) in paragraph at lines 15605--15609 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15605--15609 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [241] [242] [243] Underfull \hbox (badness 1092) in paragraph at lines 15778--15783 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [244] [245] [246] Underfull \hbox (badness 6741) in paragraph at lines 16029--16033 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [247] [248] [249] [250] [251] Underfull \hbox (badness 1867) in paragraph at lines 16335--16342 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [252] [253] [254] [255] Underfull \vbox (badness 10000) has occurred while \output is active [256] [257] [258] Underfull \hbox (badness 3679) in paragraph at lines 16745--16747 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/zi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [259] [260] [261] [262] [263] [264] [265] [266] Underfull \hbox (badness 1478) in paragraph at lines 17310--17313 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [267] [268] [269] Underfull \hbox (badness 10000) in paragraph at lines 17563--17565 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1442) in paragraph at lines 18154--18156 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [280] Underfull \hbox (badness 2452) in paragraph at lines 18246--18262 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [281] [282] [283] [284] [285] [286] [287] Underfull \hbox (badness 1248) in paragraph at lines 18660--18663 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [288] [289] [290] [291] Underfull \hbox (badness 4739) in paragraph at lines 18918--18920 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [292] [293] [294] [295] [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] [306] [307] [308] Underfull \hbox (badness 2469) in paragraph at lines 19935--19940 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 19949--19956 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [309] Underfull \hbox (badness 10000) in paragraph at lines 20023--20027 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20023--20027 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [310] [311] Underfull \hbox (badness 1509) in paragraph at lines 20158--20165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 library \T1/ptm/m/n/10 is called with no \T1 /zi4/m/n/10 package \T1/ptm/m/n/10 or \T1/zi4/m/n/10 help \T1/ptm/m/n/10 ar-gu- ment, it lists all avail-able pack-ages Underfull \hbox (badness 1552) in paragraph at lines 20158--20165 \T1/ptm/m/n/10 Use \T1/zi4/m/n/10 .packages(all = TRUE) \T1/ptm/m/n/10 to ob-ta in just the names of all avail-able pack-ages, and Underfull \hbox (badness 1014) in paragraph at lines 20174--20179 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 1264) in paragraph at lines 20925--20930 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 20954--20957 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] Underfull \hbox (badness 10000) in paragraph at lines 21701--21703 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [336] [337] [338] [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1077) in paragraph at lines 22736--22742 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [352] [353] [354] Underfull \hbox (badness 1484) in paragraph at lines 22899--22907 \T1/ptm/m/n/10 to al-low more (up to 3Gb). See [][]$\T1/zi4/m/n/10 https : / / www . microsoft . com / whdc / system / platform / [355] [356] [357] [358] [359] Underfull \hbox (badness 2790) in paragraph at lines 23184--23187 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23184--23187 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [360] [361] [362] [363] Underfull \hbox (badness 1194) in paragraph at lines 23466--23469 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [364] [365] [366] Underfull \hbox (badness 10000) in paragraph at lines 23672--23678 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing Underfull \hbox (badness 7379) in paragraph at lines 23672--23678 \T1/ptm/m/n/10 list, i.e., \T1/zi4/m/n/10 names(as.list(env, all.names = TRUE)) \T1/ptm/m/n/10 which are also given by Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 23682--23685 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [367] [368] [369] [370] [371] [372] Underfull \hbox (badness 10000) in paragraph at lines 24053--24056 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [373] [374] [375] [376] [377] [378] [379] [380] [381] Underfull \hbox (badness 10000) in paragraph at lines 24655--24657 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than [382] [383] [384] [385] Underfull \hbox (badness 1199) in paragraph at lines 24899--24905 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/zi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 24899--24905 \T1/ptm/m/n/10 ([][]type[][][] \T1/zi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/zi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/zi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [386] [387] [388] [389] [390] [391] [392] [393] Underfull \hbox (badness 1038) in paragraph at lines 25491--25499 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially [394] Underfull \hbox (badness 1881) in paragraph at lines 25500--25503 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25519--25521 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [395] Underfull \hbox (badness 10000) in paragraph at lines 25628--25638 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/zi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2142) in paragraph at lines 25639--25645 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [396] Underfull \hbox (badness 1968) in paragraph at lines 25675--25680 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 25685--25687 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [397] [398] [399] Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 25948--25954 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 25961--25964 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 25987--25989 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [400] Underfull \hbox (badness 10000) in paragraph at lines 26019--26024 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 1629) in paragraph at lines 26025--26036 \T1/ptm/m/n/10 si-ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi 4/m/n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use an d Underfull \hbox (badness 7203) in paragraph at lines 26037--26040 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 3713) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Pos-si-ble val-ues are \T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (t he de-fault ex-cept un-der a CRAN ma-cOS build), Underfull \hbox (badness 7944) in paragraph at lines 26047--26059 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). Underfull \hbox (badness 2351) in paragraph at lines 26047--26059 \T1/ptm/m/n/10 Win-dows uses \T1/zi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/z i4/m/n/10 "mac.binary.mavericks"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "mac.binary.leo pard"\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/zi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 26061--26068 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 1874) in paragraph at lines 26061--26068 \T1/zi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [401] [402] [403] [404] [405] Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/zi4/m/n/10 X \T1/ptm/m/n /10 and \T1/zi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/zi4/m/n/10 A \T1/ptm/ m/n/10 with di-men-sion Underfull \hbox (badness 10000) in paragraph at lines 26405--26409 \T1/zi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e-ment \T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [406] [407] [408] [409] [410] Underfull \hbox (badness 1735) in paragraph at lines 26724--26728 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 paste() \T1/ptm/m/n/10 co-erces [][]\ T1/zi4/m/n/10 NA_character_[][][]\T1/ptm/m/n/10 , the char-ac-ter miss-ing valu e, to \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 which [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] Underfull \hbox (badness 2726) in paragraph at lines 27299--27302 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [421] [422] [423] [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] Underfull \hbox (badness 1052) in paragraph at lines 28131--28136 []\T1/zi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [434] [435] [436] [437] [438] Underfull \vbox (badness 10000) has occurred while \output is active [439] [440] [441] [442] [443] [444] [445] [446] Underfull \hbox (badness 1533) in paragraph at lines 28968--28971 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [447] [448] Underfull \hbox (badness 1163) in paragraph at lines 29131--29142 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 30664--30668 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 30664--30668 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. [473] Underfull \hbox (badness 6188) in paragraph at lines 30686--30688 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [474] [475] [476] [477] [478] [479] [480] [481] Underfull \hbox (badness 1655) in paragraph at lines 31229--31231 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 10000) in paragraph at lines 31937--31941 []\T1/zi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [493] [494] [495] [496] Underfull \hbox (badness 2302) in paragraph at lines 32188--32195 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 3333) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 val-ues. In the case \T1/zi4/m/n/10 center = TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, Underfull \hbox (badness 2181) in paragraph at lines 32188--32195 \T1/ptm/m/n/10 but in gen-eral it is not. (To scale by the stan-dard de-vi-a-ti ons with-out cen-ter-ing, use [497] [498] [499] Underfull \hbox (badness 2261) in paragraph at lines 32344--32349 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 32371--32377 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters [500] Underfull \hbox (badness 10000) in paragraph at lines 32447--32452 []\T1/ptm/m/n/10 Note that since \T1/zi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] Underfull \vbox (badness 3803) has occurred while \output is active [540] [541] [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 1072) in paragraph at lines 35489--35493 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 35494--35498 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 35522--35528 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in [548] Underfull \hbox (badness 3343) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 35534--35541 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [549] [550] [551] [552] [553] Underfull \hbox (badness 10000) in paragraph at lines 35875--35881 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is Underfull \hbox (badness 1264) in paragraph at lines 35875--35881 \T1/zi4/m/n/10 "%Y-%m-%d %H:%M:%S" \T1/ptm/m/n/10 if any el-e-ment has a time c om-po-nent which is [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] Underfull \hbox (badness 3333) in paragraph at lines 37745--37750 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [584] [585] [586] [587] [588] [589] Underfull \vbox (badness 10000) has occurred while \output is active [590] [591] [592] [593] [594] Underfull \hbox (badness 1472) in paragraph at lines 38377--38380 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] Underfull \vbox (badness 3803) has occurred while \output is active [608] Underfull \hbox (badness 10000) in paragraph at lines 39283--39287 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 39533--39536 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [613] [614] Underfull \hbox (badness 10000) in paragraph at lines 39651--39655 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [615] Underfull \hbox (badness 10000) in paragraph at lines 39713--39717 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 4013) in paragraph at lines 40326--40328 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / www . twinsun . com / tz / tz-[]link . [625] [626] [627] [628] [629] [630] Underfull \vbox (badness 10000) has occurred while \output is active [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 3460) in paragraph at lines 41207--41210 []\T1/ptm/m/n/10 a [][]con-nec-tion[][][], or a char-ac-ter string nam-ing the file to print to (via Underfull \hbox (badness 1990) in paragraph at lines 41214--41222 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41214--41222 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41491--41494 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. [643] [644] [645] [646] Underfull \hbox (badness 1917) in paragraph at lines 41719--41726 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [647] [648] [649] [650] [651] [652] [653] [654] [655] [656] [657] Underfull \hbox (badness 3668) in paragraph at lines 42440--42442 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [658] [659] Underfull \hbox (badness 2401) in paragraph at lines 42568--42572 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [660] [661] [662] Underfull \hbox (badness 2111) in paragraph at lines 42757--42762 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 7362) in paragraph at lines 42773--42778 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [663] [664] [665] [666] [667] [668] [669] [670] [671] Underfull \hbox (badness 5417) in paragraph at lines 43354--43358 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [672] Underfull \hbox (badness 10000) in paragraph at lines 43415--43419 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [673] [674]) (./compiler-pkg.tex Chapter 2. [675] [676] [677] [678]) (./datasets-pkg.tex Chapter 3. [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [696] [697] [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] Overfull \vbox (19.74611pt too high) has occurred while \output is active [731] [732] [733] [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] Underfull \vbox (badness 10000) has occurred while \output is active [747] [748] [749] [750] Underfull \vbox (badness 10000) has occurred while \output is active [751] [752] [753] [754] [755] [756] Overfull \vbox (18.9959pt too high) has occurred while \output is active [757] [758] [759]) (./grDevices-pkg.tex [760] Chapter 4. [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] Underfull \hbox (badness 5175) in paragraph at lines 1082--1084 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [778] [779] [780] [781] Underfull \hbox (badness 1852) in paragraph at lines 1279--1282 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [782] [783] [784] Underfull \hbox (badness 1490) in paragraph at lines 1485--1490 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [785] [786] Underfull \hbox (badness 10000) in paragraph at lines 1608--1612 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/10 when [787] [788] [789] [790] Underfull \hbox (badness 1325) in paragraph at lines 1891--1901 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [791] [792] Underfull \hbox (badness 10000) in paragraph at lines 1996--1998 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [793] [794] [795] Underfull \hbox (badness 6758) in paragraph at lines 2157--2160 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [796] [797] [798] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 10000) in paragraph at lines 2750--2751 [805] [806] [807] [808] [809] [810] [811] [812] Underfull \hbox (badness 10000) in paragraph at lines 3248--3253 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [813] [814] [815] [816] Underfull \hbox (badness 3302) in paragraph at lines 3514--3517 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3528--3530 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/zi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [817] [818] [819] [820] [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Underfull \hbox (badness 1067) in paragraph at lines 4355--4362 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [831] [832] [833] Underfull \hbox (badness 1789) in paragraph at lines 4595--4597 []\T1/ptm/m/n/10 title string to em-bed as the \T1/zi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to [834] Underfull \hbox (badness 1377) in paragraph at lines 4645--4650 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [835] Underfull \hbox (badness 2671) in paragraph at lines 4672--4680 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/zi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4721--4728 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4729--4738 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, Underfull \hbox (badness 1755) in paragraph at lines 4739--4741 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [836] [837] Underfull \hbox (badness 1377) in paragraph at lines 4850--4855 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [838] Underfull \hbox (badness 7344) in paragraph at lines 4910--4912 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [839] [840] Underfull \hbox (badness 2035) in paragraph at lines 5034--5043 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5034--5043 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [841] Underfull \hbox (badness 10000) in paragraph at lines 5102--5109 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5102--5109 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [842] [843] [844] Underfull \hbox (badness 1546) in paragraph at lines 5244--5252 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [845] Underfull \hbox (badness 1648) in paragraph at lines 5321--5325 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [846] [847] [848] [849] [850] [851] [852] Underfull \hbox (badness 10000) in paragraph at lines 5772--5775 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1189) in paragraph at lines 6169--6171 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [859] [860] Underfull \hbox (badness 10000) in paragraph at lines 6267--6269 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [861] [862] [863] [864] Underfull \hbox (badness 3780) in paragraph at lines 6558--6564 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [865] [866] [867] Underfull \hbox (badness 2680) in paragraph at lines 6759--6761 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [868] [869] [870]) (./graphics-pkg.tex Chapter 5. [871] [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] Underfull \hbox (badness 10000) in paragraph at lines 687--694 []\T1/zi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Underfull \hbox (badness 4634) in paragraph at lines 1262--1265 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1009) in paragraph at lines 2296--2303 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] Underfull \vbox (badness 10000) has occurred while \output is active [931] [932] [933] [934] Underfull \hbox (badness 1867) in paragraph at lines 3950--3954 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [935] [936] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 1924) in paragraph at lines 4400--4405 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain Underfull \hbox (badness 3229) in paragraph at lines 4432--4437 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [943] [944] [945] [946] [947] Underfull \hbox (badness 10000) in paragraph at lines 4785--4791 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4785--4791 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [948] [949] Underfull \hbox (badness 10000) in paragraph at lines 4916--4919 [950 >/library/graphics/help/figures/ mai.pdf>] Underfull \hbox (badness 10000) in paragraph at lines 4977--4979 Underfull \vbox (badness 10000) has occurred while \output is active [951] [952 >/library/graphics/help/figures/ oma.pdf>] [953] Underfull \hbox (badness 10000) in paragraph at lines 5167--5169 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [954] Underfull \vbox (badness 3803) has occurred while \output is active [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6638--6639 [][] [977] [978 >/library/graphics/help/fi gures/pch.pdf>] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] Underfull \hbox (badness 1048) in paragraph at lines 7347--7352 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [989] [990] Underfull \hbox (badness 1102) in paragraph at lines 7463--7466 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 1043) in paragraph at lines 8304--8308 []\T1/ptm/m/n/10 For \T1/zi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/zi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [1005] [1006] [1007] [1008] [1009] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 8723--8725 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8725--8727 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1012]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8805 \HeaderA{units}{Graphical Units}{units} [1013] [1014] [1015] [1016]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] Underfull \hbox (badness 2680) in paragraph at lines 392--395 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] Underfull \hbox (badness 4279) in paragraph at lines 972--981 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] Underfull \hbox (badness 1067) in paragraph at lines 4355--4358 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1090] [1091] [1092] [1093] Underfull \hbox (badness 7256) in paragraph at lines 4600--4602 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 10000) in paragraph at lines 5877--5883 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] Underfull \hbox (badness 7649) in paragraph at lines 6356--6359 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1124] [1125] [1126] [1127]) (./methods-pkg.tex [1128] Chapter 7. [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] Underfull \vbox (badness 3803) has occurred while \output is active [1137] Underfull \vbox (badness 10000) has occurred while \output is active [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] Underfull \hbox (badness 1077) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1156] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1157] [1158] [1159] Underfull \hbox (badness 1242) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1160] [1161] [1162] [1163] [1164] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1165] [1166] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1167] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1168] [1169] [1170] [1171] [1172] [1173] [1174] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1180] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1181] Overfull \hbox (123.02902pt too wide) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longitude = "numeric", altitude = "numeric")) Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [1182] Overfull \hbox (16.41006pt too wide) in paragraph at lines 3846--3847 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = "numeric") [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] Underfull \hbox (badness 1436) in paragraph at lines 4443--4446 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/zi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1193] Underfull \hbox (badness 1092) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 4531--4538 \T1/ptm/m/n/10 if se-lect-ing class \T1/zi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/zi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Underfull \vbox (badness 10000) has occurred while \output is active [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 5355--5356 []\T1/zi4/m/n/10 unique.uncased <- function(x, incomparables = FALSE, ...) [1205] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1206] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1207] [1208] [1209] [1210] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1219] [1220] [1221] [1222] Underfull \vbox (badness 10000) has occurred while \output is active [1223] [1224] [1225] [1226]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1227] [1228] [1229]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1230] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1231] [1232] [1233] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \vbox (badness 10000) has occurred while \output is active [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1276] [1277] [1278] [1279]) (./parallel-pkg.tex [1280] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 3386) in paragraph at lines 1339--1342 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1302] [1303] [1304]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319]) (./stats-pkg.tex [1320] Chapter 10. [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1412) in paragraph at lines 847--849 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] Underfull \hbox (badness 2503) in paragraph at lines 1328--1331 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1342] [1343] [1344] Underfull \hbox (badness 10000) in paragraph at lines 1508--1512 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1345] [1346] [1347] [1348] Underfull \hbox (badness 10000) in paragraph at lines 1773--1777 []\T1/ptm/m/n/10 function to be called to han-dle miss-ing val-ues. Cur-rently, via Underfull \hbox (badness 1546) in paragraph at lines 1773--1777 \T1/zi4/m/n/10 na.action = na.pass\T1/ptm/m/n/10 , only Yule-Walker method can han-dle miss-ing [1349] [1350] [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 3965) in paragraph at lines 2183--2185 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 3965) in paragraph at lines 2534--2536 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] Underfull \hbox (badness 2726) in paragraph at lines 3260--3276 \T1/ptm/m/n/10 We have slightly tweaked the orig-i-nal ``TOMS 708'' al-go-rithm , and en-hanced for [1373] [1374] Underfull \hbox (badness 2503) in paragraph at lines 3390--3393 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] Underfull \hbox (badness 3989) in paragraph at lines 4634--4641 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1395] [1396] Underfull \hbox (badness 3612) in paragraph at lines 4754--4756 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 "aov" \T1/ptm/m/n/10 method does not re-por t aliased co-ef-fi-cients (see [][]\T1/zi4/m/n/10 alias[][][]\T1/ptm/m/n/10 ) b y de-fault where [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2556) in paragraph at lines 5270--5273 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5287--5289 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1405] [1406] [1407] [1408] Underfull \hbox (badness 1142) in paragraph at lines 5527--5539 \T1/ptm/m/n/10 For \T1/zi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete-ness. [1409] [1410] [1411] Underfull \hbox (badness 2503) in paragraph at lines 5679--5683 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] Underfull \hbox (badness 8132) in paragraph at lines 6183--6188 \T1/ptm/m/n/10 then \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1420] [1421] [1422] [1423] [1424] Underfull \hbox (badness 7081) in paragraph at lines 6461--6464 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6465--6467 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1425] [1426] [1427] [1428] [1429] Underfull \vbox (badness 3803) has occurred while \output is active [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] Underfull \hbox (badness 10000) in paragraph at lines 7310--7313 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 2626) in paragraph at lines 8954--8957 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1465] Underfull \hbox (badness 2503) in paragraph at lines 9061--9065 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1466] Underfull \hbox (badness 2564) in paragraph at lines 9113--9122 []\T1/ptm/m/n/10 For larger than $\OT1/cmr/m/n/10 2 \OMS/cmsy/m/n/10 ^^B \OT1/c mr/m/n/10 2$ \T1/ptm/m/n/10 ta-bles and \T1/zi4/m/n/10 hybrid = TRUE\T1/ptm/m/n /10 , asymp-totic chi-squared prob-a-bil-i- Underfull \hbox (badness 1331) in paragraph at lines 9113--9122 \T1/ptm/m/n/10 ties are only used if the `Cochran con-di-tions' (or mod-i-fied ver-sion thereof) spec-i-fied by [1467] [1468] [1469] [1470] [1471] Overfull \hbox (3.53955pt too wide) in paragraph at lines 9435--9437 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 4518) in paragraph at lines 10363--10368 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2142) in paragraph at lines 10711--10714 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10730--10733 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1492] Underfull \hbox (badness 1708) in paragraph at lines 10792--10796 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 1694) in paragraph at lines 11190--11193 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to Underfull \hbox (badness 1867) in paragraph at lines 11209--11218 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 10000) in paragraph at lines 11517--11520 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of [1504] [1505] [1506]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.11671 \aliasA{hat}{influence.measures}{hat} [1507] [1508] Underfull \hbox (badness 1484) in paragraph at lines 11802--11804 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 4441) in paragraph at lines 12388--12390 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to Underfull \hbox (badness 10000) in paragraph at lines 12395--12397 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when [1519] [1520] [1521] [1522] [1523] [1524] Underfull \hbox (badness 2894) in paragraph at lines 12731--12735 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 4518) in paragraph at lines 13481--13486 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 4518) in paragraph at lines 14133--14138 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1547] [1548] Underfull \hbox (badness 10000) in paragraph at lines 14271--14275 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = Underfull \hbox (badness 1199) in paragraph at lines 14278--14280 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] Underfull \hbox (badness 2503) in paragraph at lines 15346--15350 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 1584) in paragraph at lines 15858--15864 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 2359) in paragraph at lines 17533--17535 []\T1/ptm/m/n/10 Douglas M. Bates and Saikat De-bRoy: David M. Gay for the For- tran code used by [1601] [1602] Underfull \vbox (badness 10000) has occurred while \output is active [1603] Underfull \vbox (badness 10000) has occurred while \output is active [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] Underfull \hbox (badness 1377) in paragraph at lines 18445--18450 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18450--18453 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1454) in paragraph at lines 18463--18467 \T1/ptm/m/n/10 value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18471--18475 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1617] [1618] [1619] Underfull \vbox (badness 10000) has occurred while \output is active [1620] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18695--18695 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18698--18698 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1621] [1622] [1623] [1624] [1625] [1626] Underfull \hbox (badness 1337) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1627] [1628] [1629] [1630] [1631] [1632] [1633] [1634] [1635] Underfull \hbox (badness 3049) in paragraph at lines 19609--19613 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1636] [1637] [1638] [1639] [1640] Underfull \hbox (badness 5563) in paragraph at lines 19864--19866 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 19867--19870 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1641] [1642] [1643] [1644] [1645] [1646] Underfull \hbox (badness 2503) in paragraph at lines 20242--20245 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1647] Underfull \hbox (badness 10000) in paragraph at lines 20269--20271 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] Underfull \hbox (badness 10000) in paragraph at lines 21342--21348 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] Underfull \hbox (badness 1337) in paragraph at lines 22689--22695 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23251--23251 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1696] [1697] [1698] [1699] [1700] Underfull \hbox (badness 10000) in paragraph at lines 23502--23505 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] Underfull \hbox (badness 10000) in paragraph at lines 24087--24090 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has [1710] Underfull \hbox (badness 3690) in paragraph at lines 24139--24143 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1711] [1712] [1713] [1714] [1715] [1716] [1717] [1718] Underfull \hbox (badness 2165) in paragraph at lines 24616--24621 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1719] [1720] [1721] [1722] Underfull \hbox (badness 1867) in paragraph at lines 24821--24823 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallback = use.fallback) \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 PP <- sum(!is.na([][]coef[][][](object))) \T1/ptm/m/n/10 -- wher e in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was Underfull \hbox (badness 1132) in paragraph at lines 24834--24838 \T1/zi4/m/n/10 length(coef(object)) \T1/ptm/m/n/10 which is too large in case o f un-de-ter-mined co-ef-fi-cients, e.g., for [1723] [1724] [1725] [1726] [1727] [1728] [1729] Underfull \hbox (badness 10000) in paragraph at lines 25306--25311 []\T1/ptm/m/n/10 integer or [][]\T1/zi4/m/n/10 function[][][] \T1/ptm/m/n/10 gi v-ing the num-ber of knots to use when [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \vbox (badness 10000) has occurred while \output is active [1746] Underfull \hbox (badness 3514) in paragraph at lines 26362--26367 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1747] [1748] Underfull \hbox (badness 3514) in paragraph at lines 26458--26463 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1749] Underfull \hbox (badness 3514) in paragraph at lines 26544--26549 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1750] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26596--26596 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1751] Underfull \hbox (badness 3514) in paragraph at lines 26632--26638 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1752] [1753] [1754] [1755] Underfull \hbox (badness 3514) in paragraph at lines 26846--26851 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1756] [1757] Underfull \hbox (badness 3514) in paragraph at lines 26933--26938 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1758] Underfull \hbox (badness 3514) in paragraph at lines 26998--27003 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1759] [1760] Underfull \hbox (badness 3514) in paragraph at lines 27092--27097 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1761] Underfull \hbox (badness 6691) in paragraph at lines 27184--27189 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 27714--27717 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/zi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] Underfull \hbox (badness 5431) in paragraph at lines 28320--28322 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1781] [1782] [1783] Underfull \hbox (badness 5431) in paragraph at lines 28530--28533 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 1337) in paragraph at lines 28844--28848 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1790] [1791] Underfull \hbox (badness 10000) in paragraph at lines 28961--28964 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/zi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1792] [1793] Underfull \hbox (badness 1616) in paragraph at lines 29144--29147 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] Underfull \hbox (badness 10000) in paragraph at lines 30274--30278 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect [1813] [1814] [1815] Underfull \vbox (badness 10000) has occurred while \output is active [1816] [1817] [1818] Underfull \hbox (badness 1337) in paragraph at lines 30638--30642 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] Underfull \hbox (badness 1337) in paragraph at lines 31165--31169 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1828] Underfull \hbox (badness 2142) in paragraph at lines 31242--31247 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 x \T1/ptm/m/n/10 (and \T1/zi4/m/n/10 y \T1 /ptm/m/n/10 if ap-pli-ca-ble) are valid, the func-tion now al-ways re-turns, al so in the Underfull \hbox (badness 5161) in paragraph at lines 31264--31266 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1829] [1830] [1831] [1832] [1833] [1834] Underfull \hbox (badness 10000) in paragraph at lines 31647--31652 []\T1/ptm/m/n/10 There is a \T1/zi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/zi4/m/n/10 table \T1/ptm/m/n/10 or [1835] [1836] [1837]) (./stats4-pkg.tex [1838] Chapter 11. [1839] [1840] [1841] [1842] [1843] [1844]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1845] [1846] [1847] [1848]) (./tcltk-pkg.tex Chapter 12. [1849] [1850] [1851] [1852] [1853] [1854] [1855] Underfull \vbox (badness 10000) has occurred while \output is active [1856] Underfull \vbox (badness 10000) has occurred while \output is active [1857] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] Underfull \hbox (badness 3019) in paragraph at lines 1407--1410 [][][]\T1/zi4/m/n/10 select.list[][][] \T1/ptm/m/n/10 (a text ver-sion ex-cept on Win-dows and the ma-cOS GUI), [][]\T1/zi4/m/n/10 menu[][][] \T1/ptm/m/n/10 ( whose [1869]) (./tools-pkg.tex [1870] Chapter 13. [1871] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1872] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1873] [1874] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1875] [1876] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] [1885] [1886] [1887] Underfull \hbox (badness 1635) in paragraph at lines 1056--1058 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1888] Underfull \hbox (badness 4441) in paragraph at lines 1134--1144 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1889] Underfull \hbox (badness 1014) in paragraph at lines 1156--1158 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1162--1164 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous Underfull \hbox (badness 10000) in paragraph at lines 1199--1202 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1199--1202 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1890] [1891] [1892] Underfull \hbox (badness 10000) in paragraph at lines 1377--1379 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1893] [1894] [1895] Underfull \hbox (badness 2293) in paragraph at lines 1551--1553 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1896] [1897] Underfull \hbox (badness 7981) in paragraph at lines 1689--1694 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1696--1698 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1898] [1899] [1900] [1901]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1893 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1902] [1903] [1904] [1905] [1906] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2195--2195 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1907] [1908] [1909] Underfull \hbox (badness 7981) in paragraph at lines 2364--2370 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1910] [1911] [1912] [1913] [1914] [1915] [1916] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2829. [1917] [1918] [1919] [1920] Underfull \hbox (badness 1424) in paragraph at lines 3111--3113 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1921] [1922] [1923] [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] Underfull \hbox (badness 10000) in paragraph at lines 3811--3813 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1933] [1934] Underfull \hbox (badness 10000) in paragraph at lines 3950--3953 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1935] [1936] Underfull \hbox (badness 1137) in paragraph at lines 4048--4050 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1937] [1938] [1939] Underfull \hbox (badness 1838) in paragraph at lines 4257--4263 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4257--4263 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1940] Underfull \hbox (badness 5726) in paragraph at lines 4337--4342 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/zi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/zi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 4337--4342 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1941] [1942] [1943] Underfull \hbox (badness 2197) in paragraph at lines 4486--4496 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 2229) in paragraph at lines 4486--4496 \T1/ptm/m/n/10 fields will al-ways be in-cluded, plus the file name in field \T 1/zi4/m/sl/10 "File" \T1/ptm/m/n/10 if [1944] Underfull \hbox (badness 1571) in paragraph at lines 4549--4553 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1945] [1946] [1947]) (./utils-pkg.tex [1948] Chapter 14. [1949] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] Underfull \hbox (badness 10000) in paragraph at lines 620--626 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 620--626 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1958] [1959] Underfull \hbox (badness 5847) in paragraph at lines 753--759 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 753--759 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1960] Underfull \hbox (badness 3861) in paragraph at lines 821--826 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1961] [1962] [1963] Underfull \hbox (badness 1430) in paragraph at lines 992--999 \T1/ptm/m/n/10 in-di-cat-ing that the bib-tex code should be given in ad-di-tio n to the for- Underfull \hbox (badness 1931) in paragraph at lines 992--999 \T1/ptm/m/n/10 mat-ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not mo re than $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 1038) in paragraph at lines 992--999 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x", 1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 992--999 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1003--1005 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1964] [1965] [1966] Underfull \vbox (badness 10000) has occurred while \output is active [1967] [1968] [1969] [1970] [1971] Underfull \hbox (badness 1371) in paragraph at lines 1482--1484 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1972] [1973] [1974] [1975] [1976] [1977] [1978] Underfull \hbox (badness 2057) in paragraph at lines 1959--1961 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1979] [1980] Underfull \hbox (badness 10000) in paragraph at lines 2054--2056 []\T1/ptm/m/n/10 One can in-clude an auto-generated pack-age ci-ta-tion in the `\T1/zi4/m/sl/10 CITATION\T1/ptm/m/n/10 ' file via [1981] Underfull \hbox (badness 5189) in paragraph at lines 2156--2158 []\T1/ptm/m/n/10 A list of keys that have been pre-vi-ously cited, to be used w hen [1982] [1983] [1984] [1985] Underfull \hbox (badness 1661) in paragraph at lines 2374--2381 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/zi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1748) in paragraph at lines 2390--2393 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1986] [1987] [1988] [1989] [1990] [1991] [1992] Underfull \hbox (badness 10000) in paragraph at lines 2800--2804 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing Overfull \hbox (59.4187pt too wide) in paragraph at lines 2805--2808 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";", as.is=FALSE)\T1/ptm/m/n/10 , [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1430) in paragraph at lines 3484--3492 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2003] Underfull \hbox (badness 1231) in paragraph at lines 3533--3539 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2004] [2005] Underfull \hbox (badness 10000) in paragraph at lines 3686--3688 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014] [2015] [2016]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4380 ...mat Unordered and Ordered Lists}{format} [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] [2031] [2032] Underfull \hbox (badness 1371) in paragraph at lines 5377--5379 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2033] Underfull \hbox (badness 1502) in paragraph at lines 5466--5471 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 5466--5471 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2034] [2035] [2036] Underfull \hbox (badness 10000) in paragraph at lines 5639--5648 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2037] Underfull \hbox (badness 2150) in paragraph at lines 5702--5705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2038] [2039] Underfull \hbox (badness 3118) in paragraph at lines 5839--5841 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2040] Underfull \hbox (badness 2409) in paragraph at lines 5872--5876 []\T1/ptm/m/n/10 To in-stall a source pack-age with com-piled code only for the sub-architecture used by [2041] Underfull \hbox (badness 1325) in paragraph at lines 5980--5984 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able [2042] Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed Underfull \hbox (badness 10000) in paragraph at lines 6063--6066 \T1/ptm/m/n/10 to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a source pac k-age in-stall. E.g., [2043] Underfull \hbox (badness 3219) in paragraph at lines 6136--6143 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6136--6143 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 6236--6241 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] Underfull \hbox (badness 10000) in paragraph at lines 7669--7671 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 7683--7685 []\T1/zi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 7691--7696 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2070] [2071] [2072] [2073] [2074] [2075] [2076] [2077] [2078] Underfull \hbox (badness 1789) in paragraph at lines 8285--8287 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1097) in paragraph at lines 9118--9121 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2092] Underfull \hbox (badness 3000) in paragraph at lines 9254--9259 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] Underfull \hbox (badness 2134) in paragraph at lines 9837--9842 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [2102] [2103] [2104] [2105] [2106] [2107] [2108] Underfull \hbox (badness 5077) in paragraph at lines 10262--10266 []\T1/zi4/m/sl/10 as.roman \T1/ptm/m/n/10 cre-ates ob-jects of class \T1/zi4/m/ sl/10 "roman" \T1/ptm/m/n/10 which are in-ter-nally rep-re-sented as in-te- Underfull \hbox (badness 2269) in paragraph at lines 10262--10266 \T1/ptm/m/n/10 gers, and have suit-able meth-ods for print-ing, for-mat-ting, s ub-set-ting, co-er-cion, etc, see Underfull \hbox (badness 2469) in paragraph at lines 10274--10278 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 10274--10278 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2109] [2110] [2111] [2112] [2113] Underfull \hbox (badness 4060) in paragraph at lines 10551--10554 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 10574--10574 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2114] Underfull \hbox (badness 10000) in paragraph at lines 10637--10639 []\T1/ptm/m/n/10 For \T1/zi4/m/sl/10 type = "txt"\T1/ptm/m/n/10 , [][]\T1/zi4/m /sl/10 file.show[][][] \T1/ptm/m/n/10 is used. [][]\T1/zi4/m/sl/10 vignette[][] []\T1/ptm/m/n/10 s are nicely viewed via [2115] [2116] [2117] Underfull \hbox (badness 2150) in paragraph at lines 10813--10815 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2118] [2119] [2120] [2121] Underfull \hbox (badness 10000) in paragraph at lines 11032--11036 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 11063--11069 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2122] [2123] Underfull \hbox (badness 2096) in paragraph at lines 11181--11184 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 11185--11188 []\T1/ptm/m/n/10 logical (\T1/zi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if [2124] Underfull \hbox (badness 1009) in paragraph at lines 11257--11268 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 3780) in paragraph at lines 11563--11567 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 11579--11582 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 2818) in paragraph at lines 11948--11953 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 11957--11960 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2136] [2137] [2138] [2139] [2140] Underfull \hbox (badness 10000) in paragraph at lines 12220--12222 []\T1/ptm/m/n/10 Options other than \T1/zi4/m/sl/10 memory = "none" \T1/ptm/m/n /10 ap-ply only to files pro-duced by [2141] [2142] Underfull \hbox (badness 1057) in paragraph at lines 12377--12384 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, [2143] [2144] [2145] [2146] Underfull \hbox (badness 3612) in paragraph at lines 12659--12663 []\T1/ptm/m/n/10 NetBSD prior to 8.0 used flag `\T1/zi4/m/sl/10 --xz\T1/ptm/m/n /10 ' rather than `\T1/zi4/m/sl/10 -J\T1/ptm/m/n/10 ', so this should be used \ T1/ptm/m/it/10 via Underfull \hbox (badness 6510) in paragraph at lines 12674--12678 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 12681--12684 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 12681--12684 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 10000) in paragraph at lines 13290--13295 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 13290--13295 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 13296--13298 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined see Underfull \hbox (badness 10000) in paragraph at lines 13326--13331 [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 av ailable = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 1297) in paragraph at lines 13326--13331 \T1/zi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by [2157] Underfull \hbox (badness 10000) in paragraph at lines 13355--13358 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2158] [2159] [2160] [2161] Overfull \hbox (23.85939pt too wide) in paragraph at lines 13597--13600 [][][]\T1/zi4/m/sl/10 browseVignettes[][][] \T1/ptm/m/n/10 for an HTML-based vi -gnette browser; [][]\T1/zi4/m/sl/10 RShowDoc[][][](, package = "") [2162] [2163] Underfull \hbox (badness 1454) in paragraph at lines 13748--13752 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [2164] Underfull \hbox (badness 10000) in paragraph at lines 13818--13820 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion [2165] [2166] [2167] [2168]) (./fullrefman.ind [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Overfull \hbox (33.3567pt too wide) in paragraph at lines 8658--8660 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2218] [2219] [2220] [2221] [2222] [2223] Overfull \hbox (20.8567pt too wide) in paragraph at lines 9958--9960 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2224] [2225] [2226] [2227] [2228] [2229] [2230] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11665--11667 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 11667--11669 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results [2231] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11669--11671 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240]) (./fullrefman.aux) LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mcd} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cov.mve} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.Insurance} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparse.model.matrix} has been referenced but do es not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lqs} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.logLik.lme} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.logLik.gls} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmrob} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rlm} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.loglm} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.nlsList} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.daisy} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.spearman.test} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pSpearman} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.pKendall} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Kendall} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cor.fk} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dMatrix} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgCMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.nls} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.confint.glm} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sammon} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isoMDS} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.width.SJ} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bcv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ucv} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.bandwidth.nrd} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.agnes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.diana} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lme} has been referenced but does not exist, re placed by a fixed one pdfTeX warning (dest): name{Rfn.ansari.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rpart} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.showDefault} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGroupMembers} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.resetGeneric} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.linearizeMlist} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getGeneric} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getMethodsForDispatch} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.setDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getDataPart} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.rBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cBind} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.possibleExtends} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.panel.identify} has been referenced but does no t exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.trellis.focus} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mosaic} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.levelplot} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.contourplot} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.assoc} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dpih} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.truehist} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.bkde2D} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.Surv} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.which.is.max} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.getNamespace} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/ texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/usr/share/texlive/texmf-dis t/fonts/enc/dvips/inconsolata/i4-t1-0.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmr8a.pfb> Output written on fullrefman.pdf (2271 pages, 6101271 bytes). Transcript written on fullrefman.log. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[1]: Leaving directory '/<>' /usr/bin/make -k vignettes make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/tools' make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' make[5]: Leaving directory '/<>/src/library/datasets' make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' make[4]: Entering directory '/<>/doc/html' make[4]: Leaving directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' installing parsed Rd make[4]: Entering directory '/<>/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' building/updating package metadata ... make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' writing package indices make[4]: Entering directory '/<>/src/library' make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src/library' make[2]: Entering directory '/<>/src/library/Recommended' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/src/library/Recommended' make[2]: Entering directory '/<>/src/library' building/updating vignettes for package 'grid' ... processing 'grid.Rnw' building/updating vignettes for package 'parallel' ... building/updating vignettes for package 'utils' ... make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' touch make-indep-stamp *** check *** xvfb-run make check-all make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/tests' make[3]: Entering directory '/<>/tests' make[4]: Entering directory '/<>/tests/Examples' Testing examples for package ‘base’ Testing examples for package ‘tools’ comparing ‘tools-Ex.Rout’ to ‘tools-Ex.Rout.save’ ... OK Testing examples for package ‘utils’ Testing examples for package ‘grDevices’ comparing ‘grDevices-Ex.Rout’ to ‘grDevices-Ex.Rout.save’ ... OK Testing examples for package ‘graphics’ comparing ‘graphics-Ex.Rout’ to ‘graphics-Ex.Rout.save’ ... OK Testing examples for package ‘stats’ comparing ‘stats-Ex.Rout’ to ‘stats-Ex.Rout.save’ ... OK Testing examples for package ‘datasets’ comparing ‘datasets-Ex.Rout’ to ‘datasets-Ex.Rout.save’ ... OK Testing examples for package ‘methods’ Testing examples for package ‘grid’ comparing ‘grid-Ex.Rout’ to ‘grid-Ex.Rout.save’ ... OK Testing examples for package ‘splines’ comparing ‘splines-Ex.Rout’ to ‘splines-Ex.Rout.save’ ... OK Testing examples for package ‘stats4’ comparing ‘stats4-Ex.Rout’ to ‘stats4-Ex.Rout.save’ ... OK Testing examples for package ‘tcltk’ Testing examples for package ‘compiler’ Testing examples for package ‘parallel’ make[4]: Leaving directory '/<>/tests/Examples' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running strict specific tests make[4]: Entering directory '/<>/tests' running code in 'eval-etc.R' ... OK comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK running code in 'simple-true.R' ... OK comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK running code in 'arith-true.R' ... OK comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK running code in 'arith.R' ... OK comparing 'arith.Rout' to './arith.Rout.save' ... OK running code in 'lm-tests.R' ... OK comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK running code in 'ok-errors.R' ... OK comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK running code in 'method-dispatch.R' ... OK comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK running code in 'any-all.R' ... OK comparing 'any-all.Rout' to './any-all.Rout.save' ... OK running code in 'd-p-q-r-tests.R' ... OK comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK make[4]: Leaving directory '/<>/tests' running sloppy specific tests make[4]: Entering directory '/<>/tests' running code in 'complex.R' ... OK comparing 'complex.Rout' to './complex.Rout.save' ... OK running code in 'eval-etc-2.R' ... OK comparing 'eval-etc-2.Rout' to './eval-etc-2.Rout.save' ...67,69c67,231 < Warning message: < In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : < there is no package called 'Matrix' --- > > cat("Trying some Matrix objects, too\n") > Trying some Matrix objects, too > > D5. <- Diagonal(x = 5:1) > > D5N <- D5. > > D5N[5, 5] <- NA > > example(Matrix) > > Matrix> Matrix(0, 3, 2) # 3 by 2 matrix of zeros -> sparse > 3 x 2 sparse Matrix of class "dgCMatrix" > > [1,] . . > [2,] . . > [3,] . . > > Matrix> Matrix(0, 3, 2, sparse=FALSE)# -> 'dense' > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 0 0 > [2,] 0 0 > [3,] 0 0 > > Matrix> Matrix(0, 2, 2, sparse=FALSE)# diagonal ! > 2 x 2 diagonal matrix of class "ddiMatrix" > [,1] [,2] > [1,] 0 . > [2,] . 0 > > Matrix> Matrix(0, 2, 2, sparse=FALSE, doDiag=FALSE)# -> dense > 2 x 2 Matrix of class "dsyMatrix" > [,1] [,2] > [1,] 0 0 > [2,] 0 0 > > Matrix> Matrix(1:6, 3, 2) # a 3 by 2 matrix (+ integer warning) > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 1 4 > [2,] 2 5 > [3,] 3 6 > > Matrix> Matrix(1:6 + 1, nrow=3) > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 2 5 > [2,] 3 6 > [3,] 4 7 > > Matrix> ## logical ones: > Matrix> Matrix(diag(4) > 0)# -> "ldiMatrix" with diag = "U" > 4 x 4 diagonal matrix of class "ldiMatrix" > [,1] [,2] [,3] [,4] > [1,] TRUE . . . > [2,] . TRUE . . > [3,] . . TRUE . > [4,] . . . TRUE > > Matrix> Matrix(diag(4) > 0, sparse=TRUE)# -> sparse... > 4 x 4 sparse Matrix of class "lsCMatrix" > > [1,] | . . . > [2,] . | . . > [3,] . . | . > [4,] . . . | > > Matrix> Matrix(diag(4) >= 0)# -> "lsyMatrix" (of all 'TRUE') > 4 x 4 Matrix of class "lsyMatrix" > [,1] [,2] [,3] [,4] > [1,] TRUE TRUE TRUE TRUE > [2,] TRUE TRUE TRUE TRUE > [3,] TRUE TRUE TRUE TRUE > [4,] TRUE TRUE TRUE TRUE > > Matrix> ## triangular > Matrix> l3 <- upper.tri(matrix(,3,3)) > > Matrix> (M <- Matrix(l3)) # -> "ltCMatrix" > 3 x 3 sparse Matrix of class "ltCMatrix" > > [1,] . | | > [2,] . . | > [3,] . . . > > Matrix> Matrix(! l3)# -> "ltrMatrix" > 3 x 3 Matrix of class "ltrMatrix" > [,1] [,2] [,3] > [1,] TRUE . . > [2,] TRUE TRUE . > [3,] TRUE TRUE TRUE > > Matrix> as(l3, "CsparseMatrix") > 3 x 3 sparse Matrix of class "lgCMatrix" > > [1,] . | | > [2,] . . | > [3,] . . . > > Matrix> Matrix(1:9, nrow=3, > Matrix+ dimnames = list(c("a", "b", "c"), c("A", "B", "C"))) > 3 x 3 Matrix of class "dgeMatrix" > A B C > a 1 4 7 > b 2 5 8 > c 3 6 9 > > Matrix> (I3 <- Matrix(diag(3)))# identity, i.e., unit "diagonalMatrix" > 3 x 3 diagonal matrix of class "ddiMatrix" > [,1] [,2] [,3] > [1,] 1 . . > [2,] . 1 . > [3,] . . 1 > > Matrix> str(I3) # note the empty 'x' slot > Formal class 'ddiMatrix' [package "Matrix"] with 4 slots > ..@ diag : chr "U" > ..@ Dim : int [1:2] 3 3 > ..@ Dimnames:List of 2 > .. ..$ : NULL > .. ..$ : NULL > ..@ x : num(0) > > Matrix> (A <- cbind(a=c(2,1), b=1:2))# symmetric *apart* from dimnames > a b > [1,] 2 1 > [2,] 1 2 > > Matrix> Matrix(A) # hence 'dgeMatrix' > 2 x 2 Matrix of class "dgeMatrix" > a b > [1,] 2 1 > [2,] 1 2 > > Matrix> (As <- Matrix(A, dimnames = list(NULL,NULL)))# -> symmetric > 2 x 2 Matrix of class "dsyMatrix" > [,1] [,2] > [1,] 2 1 > [2,] 1 2 > > Matrix> stopifnot(is(As, "symmetricMatrix"), > Matrix+ is(Matrix(0, 3,3), "sparseMatrix"), > Matrix+ is(Matrix(FALSE, 1,1), "sparseMatrix")) > > i <- c(1, 3:8) > > j <- c(2, 9, 6:10) > > x <- 7 * (1:7) > > A <- sparseMatrix(i, j, x = x) > > sA <- sparseMatrix(i, j, x = x, symmetric = TRUE) > > tA <- sparseMatrix(i, j, x = x, triangular = TRUE) > > AA <- sparseMatrix(c(1, 3:8), c(2, 9, 6:10), x = 7 * (1:7), dims = c(10, > + 20)) > > set.seed(1) > > (perm <- sample(1:7)) > [1] 2 3 6 4 1 7 5 > > A1 <- sparseMatrix(i[perm], j[perm], x = x[perm]) > > args <- data.frame(i = c(i, 1), j = c(j, 2), x = c(x, 2)) > > Aa <- do.call(sparseMatrix, args) > > A. <- do.call(sparseMatrix, c(args, list(use.last.ij = TRUE))) > > nA <- do.call(sparseMatrix, args[c("i", "j")]) > > dn <- list(LETTERS[1:3], letters[1:5]) > > m <- sparseMatrix(i = c(3, 1, 3:2, 2:1), p = c(0:2, 4, 4, 6), x = 1:6, > + dimnames = dn) > > n <- sparseMatrix(i = 1:6, j = rev(2:7)) > > e <- sparseMatrix(dims = c(4, 6), i = { > + }, j = { > + }) > > sy <- sparseMatrix(i = c(2, 4, 3:5), j = c(4, 7:5, 5), x = 1:5, dims = c(7, > + 7), symmetric = TRUE) 83a246,297 > A: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > A.: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(2, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > A1: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > AA: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, > 7L, 7L, 7L, 7L), Dim = c(10L, 20L), Dimnames = list(NULL, NULL), > x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > Aa: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(9, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > As: new("dsyMatrix", x = c(2, 1, 1, 2), Dim = c(2L, 2L), Dimnames = list( > NULL, NULL), uplo = "U", factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > D5.: new("ddiMatrix", diag = "N", Dim = c(5L, 5L), Dimnames = list( > NULL, NULL), x = c(5, 4, 3, 2, 1)) > --> checking list(*): Ok > --=--=--=--=-- > D5N: new("ddiMatrix", diag = "N", Dim = c(5L, 5L), Dimnames = list( > NULL, NULL), x = c(5, 4, 3, 2, NA)) > --> checking list(*): Ok > --=--=--=--=-- > I3: new("ddiMatrix", diag = "U", Dim = c(3L, 3L), Dimnames = list( > NULL, NULL), x = numeric(0)) > --> checking list(*): Ok > --=--=--=--=-- > M: new("ltCMatrix", i = c(0L, 0L, 1L), p = c(0L, 0L, 1L, 3L), Dim = c(3L, > 3L), Dimnames = list(NULL, NULL), x = c(TRUE, TRUE, TRUE), uplo = "U", > diag = "N") > --> checking list(*): Ok > --=--=--=--=-- > args: structure(list(i = c(1, 3, 4, 5, 6, 7, 8, 1), j = c(2, 9, 6, > 7, 8, 9, 10, 2), x = c(7, 14, 21, 28, 35, 42, 49, 2)), class = "data.frame", row.names = c(NA, > -8L)) > --> checking list(*): Ok > --=--=--=--=-- 183a398,404 > dn: list(c("A", "B", "C"), c("a", "b", "c", "d", "e")) > --> checking list(*): Ok > --=--=--=--=-- > e: new("ngCMatrix", i = integer(0), p = c(0L, 0L, 0L, 0L, 0L, 0L, > 0L), Dim = c(4L, 6L), Dimnames = list(NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- 245a467,469 > i: c(1, 3, 4, 5, 6, 7, 8) > --> checking list(*): Ok > --=--=--=--=-- 265a490,510 > j: c(2, 9, 6, 7, 8, 9, 10) > --> checking list(*): Ok > --=--=--=--=-- > l3: structure(c(FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, TRUE, TRUE, > FALSE), .Dim = c(3L, 3L)) > --> checking list(*): Ok > --=--=--=--=-- > m: new("dgCMatrix", i = c(2L, 0L, 1L, 2L, 0L, 1L), p = c(0L, 1L, > 2L, 4L, 4L, 6L), Dim = c(3L, 5L), Dimnames = list(c("A", "B", > "C"), c("a", "b", "c", "d", "e")), x = c(1, 2, 4, 3, 6, 5), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > n: new("ngCMatrix", i = 5:0, p = c(0L, 0L, 1L, 2L, 3L, 4L, 5L, 6L > ), Dim = 6:7, Dimnames = list(NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > nA: new("ngCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- 275a521,546 > perm: c(2L, 3L, 6L, 4L, 1L, 7L, 5L) > --> checking list(*): Ok > --=--=--=--=-- > sA: new("dsCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(10L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), uplo = "U", > factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > sy: new("dsCMatrix", i = c(1L, 3L, 4L, 2L, 3L), p = c(0L, 0L, 0L, > 0L, 1L, 3L, 4L, 5L), Dim = c(7L, 7L), Dimnames = list(NULL, NULL), > x = c(1, 4, 5, 3, 2), uplo = "U", factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > tA: new("dtCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(10L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), uplo = "U", > diag = "N") > --> checking list(*): Ok > --=--=--=--=-- > x: new("dtCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(10L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), uplo = "U", > diag = "N") > --> checking list(*): Ok > --=--=--=--=-- 277,279c548,549 < 1 identical warnings: < In library(package, lib.loc = lib.loc, character.only = TRUE, ... : < there is no package called 'Matrix' --- > Length Class Mode > 0 NULL NULL OK running code in 'print-tests.R' ... OK comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK running code in 'lapack.R' ... OK comparing 'lapack.Rout' to './lapack.Rout.save' ... OK running code in 'datasets.R' ... OK comparing 'datasets.Rout' to './datasets.Rout.save' ... OK running code in 'datetime.R' ... OK comparing 'datetime.Rout' to './datetime.Rout.save' ... OK running code in 'iec60559.R' ... OK comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK make[4]: Leaving directory '/<>/tests' make[4]: Entering directory '/<>/tests' checking Sys.timezone ... make[5]: Entering directory '/<>/tests' running code in 'timezone.R' ... OK make[5]: Leaving directory '/<>/tests' make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running regression tests ... make[4]: Entering directory '/<>/tests' running code in 'array-subset.R' ... OK running code in 'reg-tests-1a.R' ... OK running code in 'reg-tests-1b.R' ... OK running code in 'reg-tests-1c.R' ... OK running code in 'reg-tests-1d.R' ... OK running code in 'reg-tests-2.R' ... OK comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save' ... OK running code in 'reg-examples1.R' ... OK running code in 'reg-examples2.R' ... OK running code in 'reg-packages.R' ... OK running code in 'p-qbeta-strict-tst.R' ... OK running code in 'r-strict-tst.R' ... OK running code in 'reg-IO.R' ... OK comparing 'reg-IO.Rout' to './reg-IO.Rout.save' ... OK running code in 'reg-IO2.R' ... OK comparing 'reg-IO2.Rout' to './reg-IO2.Rout.save' ... OK running code in 'reg-plot.R' ... OK comparing 'reg-plot.pdf' to './reg-plot.pdf.save' ... OK running code in 'reg-S4-examples.R' ... OK running code in 'reg-BLAS.R' ... OK make[4]: Leaving directory '/<>/tests' make[4]: Entering directory '/<>/tests' running tests of plotting Latin-1 expect failure or some differences if not in a Latin-1 or UTF-8 locale running code in 'reg-plot-latin1.R' ... OK comparing 'reg-plot-latin1.pdf' to './reg-plot-latin1.pdf.save' ... OK running code in 'reg-S4.R' ... OK comparing 'reg-S4.Rout' to './reg-S4.Rout.save' ...610,612c610 < Warning message: < In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : < there is no package called 'Matrix' --- > [ ] : .M.sub.i.logical() maybe inefficient 1250,1252c1248,1270 < Warning message: < In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : < there is no package called 'Matrix' --- > > setClass("Z", representation(zz = "list")) > > setClass("C", contains = c("Z", "dgCMatrix")) > > setClass("C2", contains = "C") > > setClass("C3", contains = "C2") > > m <- matrix(c(0, 0, 2:0), 3, 5, dimnames = list(NULL, NULL)) > > (mC <- as(m, "dgCMatrix")) > 3 x 5 sparse Matrix of class "dgCMatrix" > > [1,] . 1 . . 2 > [2,] . . 2 . 1 > [3,] 2 . 1 . . > > (cc <- as(mC, "C")) > 3 x 5 sparse Matrix of class "C" > > [1,] . 1 . . 2 > [2,] . . 2 . 1 > [3,] 2 . 1 . . > > c2 <- as(mC, "C2") > > c3 <- as(mC, "C3") > > stopifnot(identical(capture.output(c2), sub("C3", "C2", capture.output(c3))), > + identical(as(cc, "matrix"), m), identical(as(c2, "matrix"), m), identical(as(c3, > + "matrix"), m)) > > invisible(lapply(c("Z", "C", "C2", "C3"), removeClass)) OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of Internet functions make[4]: Entering directory '/<>/tests' running code in 'internet.R' ... OK comparing 'internet.Rout' to './internet.Rout.save' ...8,10c8,247 < Warning message: < In nsl("cran.r-project.org") : < nsl() was unable to resolve host 'cran.r-project.org' --- > > > > # test do_download (and "record" #{packages}): > > ap <- available.packages(contrib.url("http://cran.r-project.org")) > > ## IGNORE_RDIFF_END > > > > # test url connections on http > > zz <- url("http://cran.r-project.org/") > > readLines(zz) > [1] "" > [2] "" > [3] "" > [4] "The Comprehensive R Archive Network" > [5] "" > [6] "" > [7] "" > [8] "" > [9] "" > [10] "" > [11] "" > [12] "" > [13] "" > [14] "" > [15] "" > [16] "" > [17] "" > [18] "<h1>The Comprehensive R Archive Network</h1>" > [19] "" > [20] "Your browser seems not to support frames," > [21] "here is the <A href=\"navbar.html\">contents page</A> of CRAN." > [22] "" > [23] "" > > close(zz) > > > > # and via read.table, test http and ftp. > > > > read.table("http://www.stats.ox.ac.uk/pub/datasets/csb/ch11b.dat") > V1 V2 V3 V4 V5 > 1 1 307 930 36.58 0 > 2 2 307 940 36.73 0 > 3 3 307 950 36.93 0 > 4 4 307 1000 37.15 0 > 5 5 307 1010 37.23 0 > 6 6 307 1020 37.24 0 > 7 7 307 1030 37.24 0 > 8 8 307 1040 36.90 0 > 9 9 307 1050 36.95 0 > 10 10 307 1100 36.89 0 > 11 11 307 1110 36.95 0 > 12 12 307 1120 37.00 0 > 13 13 307 1130 36.90 0 > 14 14 307 1140 36.99 0 > 15 15 307 1150 36.99 0 > 16 16 307 1200 37.01 0 > 17 17 307 1210 37.04 0 > 18 18 307 1220 37.04 0 > 19 19 307 1230 37.14 0 > 20 20 307 1240 37.07 0 > 21 21 307 1250 36.98 0 > 22 22 307 1300 37.01 0 > 23 23 307 1310 36.97 0 > 24 24 307 1320 36.97 0 > 25 25 307 1330 37.12 0 > 26 26 307 1340 37.13 0 > 27 27 307 1350 37.14 0 > 28 28 307 1400 37.15 0 > 29 29 307 1410 37.17 0 > 30 30 307 1420 37.12 0 > 31 31 307 1430 37.12 0 > 32 32 307 1440 37.17 0 > 33 33 307 1450 37.28 0 > 34 34 307 1500 37.28 0 > 35 35 307 1510 37.44 0 > 36 36 307 1520 37.51 0 > 37 37 307 1530 37.64 0 > 38 38 307 1540 37.51 0 > 39 39 307 1550 37.98 1 > 40 40 307 1600 38.02 1 > 41 41 307 1610 38.00 1 > 42 42 307 1620 38.24 1 > 43 43 307 1630 38.10 1 > 44 44 307 1640 38.24 1 > 45 45 307 1650 38.11 1 > 46 46 307 1700 38.02 1 > 47 47 307 1710 38.11 1 > 48 48 307 1720 38.01 1 > 49 49 307 1730 37.91 1 > 50 50 307 1740 37.96 1 > 51 51 307 1750 38.03 1 > 52 52 307 1800 38.17 1 > 53 53 307 1810 38.19 1 > 54 54 307 1820 38.18 1 > 55 55 307 1830 38.15 1 > 56 56 307 1840 38.04 1 > 57 57 307 1850 37.96 1 > 58 58 307 1900 37.84 1 > 59 59 307 1910 37.83 1 > 60 60 307 1920 37.84 1 > 61 61 307 1930 37.74 1 > 62 62 307 1940 37.76 1 > 63 63 307 1950 37.76 1 > 64 64 307 2000 37.64 1 > 65 65 307 2010 37.63 1 > 66 66 307 2020 38.06 1 > 67 67 307 2030 38.19 1 > 68 68 307 2040 38.35 1 > 69 69 307 2050 38.25 1 > 70 70 307 2100 37.86 1 > 71 71 307 2110 37.95 1 > 72 72 307 2120 37.95 1 > 73 73 307 2130 37.76 1 > 74 74 307 2140 37.60 1 > 75 75 307 2150 37.89 1 > 76 76 307 2200 37.86 1 > 77 77 307 2210 37.71 1 > 78 78 307 2220 37.78 1 > 79 79 307 2230 37.82 1 > 80 80 307 2240 37.76 1 > 81 81 307 2250 37.81 1 > 82 82 307 2300 37.84 1 > 83 83 307 2310 38.01 1 > 84 84 307 2320 38.10 1 > 85 85 307 2330 38.15 1 > 86 86 307 2340 37.92 1 > 87 87 307 2350 37.64 1 > 88 88 308 0 37.70 1 > 89 89 308 10 37.46 1 > 90 90 308 20 37.41 1 > 91 91 308 30 37.46 1 > 92 92 308 40 37.56 1 > 93 93 308 50 37.55 1 > 94 94 308 100 37.75 1 > 95 95 308 110 37.76 1 > 96 96 308 120 37.73 1 > 97 97 308 130 37.77 1 > 98 98 308 140 38.01 1 > 99 99 308 150 38.04 1 > 100 100 308 200 38.07 1 > > read.table("ftp://ftp.stats.ox.ac.uk/pub/datasets/csb/ch11b.dat") > V1 V2 V3 V4 V5 > 1 1 307 930 36.58 0 > 2 2 307 940 36.73 0 > 3 3 307 950 36.93 0 > 4 4 307 1000 37.15 0 > 5 5 307 1010 37.23 0 > 6 6 307 1020 37.24 0 > 7 7 307 1030 37.24 0 > 8 8 307 1040 36.90 0 > 9 9 307 1050 36.95 0 > 10 10 307 1100 36.89 0 > 11 11 307 1110 36.95 0 > 12 12 307 1120 37.00 0 > 13 13 307 1130 36.90 0 > 14 14 307 1140 36.99 0 > 15 15 307 1150 36.99 0 > 16 16 307 1200 37.01 0 > 17 17 307 1210 37.04 0 > 18 18 307 1220 37.04 0 > 19 19 307 1230 37.14 0 > 20 20 307 1240 37.07 0 > 21 21 307 1250 36.98 0 > 22 22 307 1300 37.01 0 > 23 23 307 1310 36.97 0 > 24 24 307 1320 36.97 0 > 25 25 307 1330 37.12 0 > 26 26 307 1340 37.13 0 > 27 27 307 1350 37.14 0 > 28 28 307 1400 37.15 0 > 29 29 307 1410 37.17 0 > 30 30 307 1420 37.12 0 > 31 31 307 1430 37.12 0 > 32 32 307 1440 37.17 0 > 33 33 307 1450 37.28 0 > 34 34 307 1500 37.28 0 > 35 35 307 1510 37.44 0 > 36 36 307 1520 37.51 0 > 37 37 307 1530 37.64 0 > 38 38 307 1540 37.51 0 > 39 39 307 1550 37.98 1 > 40 40 307 1600 38.02 1 > 41 41 307 1610 38.00 1 > 42 42 307 1620 38.24 1 > 43 43 307 1630 38.10 1 > 44 44 307 1640 38.24 1 > 45 45 307 1650 38.11 1 > 46 46 307 1700 38.02 1 > 47 47 307 1710 38.11 1 > 48 48 307 1720 38.01 1 > 49 49 307 1730 37.91 1 > 50 50 307 1740 37.96 1 > 51 51 307 1750 38.03 1 > 52 52 307 1800 38.17 1 > 53 53 307 1810 38.19 1 > 54 54 307 1820 38.18 1 > 55 55 307 1830 38.15 1 > 56 56 307 1840 38.04 1 > 57 57 307 1850 37.96 1 > 58 58 307 1900 37.84 1 > 59 59 307 1910 37.83 1 > 60 60 307 1920 37.84 1 > 61 61 307 1930 37.74 1 > 62 62 307 1940 37.76 1 > 63 63 307 1950 37.76 1 > 64 64 307 2000 37.64 1 > 65 65 307 2010 37.63 1 > 66 66 307 2020 38.06 1 > 67 67 307 2030 38.19 1 > 68 68 307 2040 38.35 1 > 69 69 307 2050 38.25 1 > 70 70 307 2100 37.86 1 > 71 71 307 2110 37.95 1 > 72 72 307 2120 37.95 1 > 73 73 307 2130 37.76 1 > 74 74 307 2140 37.60 1 > 75 75 307 2150 37.89 1 > 76 76 307 2200 37.86 1 > 77 77 307 2210 37.71 1 > 78 78 307 2220 37.78 1 > 79 79 307 2230 37.82 1 > 80 80 307 2240 37.76 1 > 81 81 307 2250 37.81 1 > 82 82 307 2300 37.84 1 > 83 83 307 2310 38.01 1 > 84 84 307 2320 38.10 1 > 85 85 307 2330 38.15 1 > 86 86 307 2340 37.92 1 > 87 87 307 2350 37.64 1 > 88 88 308 0 37.70 1 > 89 89 308 10 37.46 1 > 90 90 308 20 37.41 1 > 91 91 308 30 37.46 1 > 92 92 308 40 37.56 1 > 93 93 308 50 37.55 1 > 94 94 308 100 37.75 1 > 95 95 308 110 37.76 1 > 96 96 308 120 37.73 1 > 97 97 308 130 37.77 1 > 98 98 308 140 38.01 1 > 99 99 308 150 38.04 1 > 100 100 308 200 38.07 1 > > OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of date-time printing expect platform-specific differences make[4]: Entering directory '/<>/tests' running code in 'datetime2.R' ... OK comparing 'datetime2.Rout' to './datetime2.Rout.save' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of documentation examples make[4]: Entering directory '/<>/tests' running code in 'R-intro.R' ... OK comparing 'R-intro.Rout' to './R-intro.Rout.save' ... OK make[4]: Leaving directory '/<>/tests' make[4]: Entering directory '/<>/tests' gcc -std=gnu99 -I"/<>/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R-exts.c -o R-exts.o gcc -std=gnu99 -shared -L/<>/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o R-exts.so R-exts.o -L/<>/lib -lR make[4]: Leaving directory '/<>/tests' make[4]: Entering directory '/<>/tests' running code in 'R-exts.R' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of consistency of as/is.* make[4]: Entering directory '/<>/tests' creating 'isas-tests.R' running code in 'isas-tests.R' ... OK comparing 'isas-tests.Rout' to './isas-tests.Rout.save' ... OK rm isas-tests.R make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of random deviate generation make[4]: Entering directory '/<>/tests' running code in 'p-r-random-tests.R' ... OK comparing 'p-r-random-tests.Rout' to './p-r-random-tests.Rout.save' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running demos from base and stats make[4]: Entering directory '/<>/tests' running code in 'demos.R' ... OK comparing 'demos.Rout' to './demos.Rout.save' ... OK running code in 'demos2.R' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of primitives make[4]: Entering directory '/<>/tests' running code in 'primitives.R' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running regexp regression tests make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running more Internet and socket tests make[4]: Entering directory '/<>/tests' running code in 'internet2.R' ... OK running code in 'libcurl.R' ... OK make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running tests of CRAN tools (can be slow unless mirror is local) make[4]: Entering directory '/<>/tests' running code in 'CRANtools.R' ...make[4]: *** [Makefile.common:105: CRANtools.Rout] Error 1 make[4]: Leaving directory '/<>/tests' make[3]: *** [Makefile.common:275: test-CRANtools] Error 2 make[3]: Leaving directory '/<>/tests' make[2]: *** [Makefile.common:179: test-all-devel] Error 1 make[2]: Leaving directory '/<>/tests' make[1]: *** [Makefile:241: check-all] Error 2 make[1]: Leaving directory '/<>' make: [debian/rules:387: check-stamp] Error 2 (ignored) touch check-stamp fakeroot debian/rules binary *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /<>/debian/r-base-core /usr/bin/make DESTDIR=/<>/debian/r-base-core install make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' installing doc ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc mkdir -p -- /<>/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory '/<>/doc/html' installing doc/html ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' installing doc/manual ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/manual mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/manual/images make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' installing share ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/share mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/R mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/dictionaries mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/java mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/make mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/Rd mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/Rd/macros mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' mkdir -p -- /<>/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/blas' make[4]: Entering directory '/<>/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/tre' make[4]: Entering directory '/<>/src/extra/tzone' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/tzone' make[4]: Entering directory '/<>/src/extra/xdr' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/xdr' make[4]: Entering directory '/<>/src/extra/intl' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/intl' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /<>/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/tests' make[1]: Leaving directory '/<>' (cd src/unix; \ rm -vf Rscript /<>/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/<>/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/<>/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/<>/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/<>/src/unix' #ls -ltr /<>/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /<>/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/<>/debian/r-base-core/usr/bin/Rscript' #ls -ltr /<>/debian/r-base-core/usr/bin/ #strings /<>/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/<>/debian/r-base-core install ) make[1]: Entering directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/<>/src/include' /<>/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/<>/src/nmath/standalone' chmod a+x /<>/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /<>/debian/r-base-core/usr/lib/R/COPYING removed '/<>/debian/r-base-core/usr/lib/R/COPYING' (cd /<>/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /<>/debian/r-base-core/usr/share/R/doc/COPYING removed '/<>/debian/r-base-core/usr/share/R/doc/COPYING' (cd /<>/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /<>/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html make prefix=/<>/debian/r-base-core/usr \ rdocdir=/<>/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc/manual' installing R manuals in PDF format ... make[2]: Leaving directory '/<>/doc/manual' make[1]: Leaving directory '/<>' make prefix=/<>/debian/r-base-core/usr \ infodir=/<>/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc/manual' mkdir -p -- /<>/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/<>/debian/r-base-core/usr/share/info" installing R info pages ... updating '/<>/debian/r-base-core/usr/share/info/dir' ... you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/<>/doc/manual' make[1]: Leaving directory '/<>' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html touch install-indep-stamp gunzip -9v /<>/debian/r-base-core/usr/share/info/*.gz /<>/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.0% -- replaced with /<>/debian/r-base-core/usr/share/info/R-FAQ.info /<>/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.1% -- replaced with /<>/debian/r-base-core/usr/share/info/R-admin.info /<>/debian/r-base-core/usr/share/info/R-data.info.gz: 70.6% -- replaced with /<>/debian/r-base-core/usr/share/info/R-data.info /<>/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.7% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-1 /<>/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 69.8% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-2 /<>/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 83.3% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-3 /<>/debian/r-base-core/usr/share/info/R-exts.info.gz: 69.5% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info /<>/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.1% -- replaced with /<>/debian/r-base-core/usr/share/info/R-intro.info /<>/debian/r-base-core/usr/share/info/R-ints.info.gz: 67.9% -- replaced with /<>/debian/r-base-core/usr/share/info/R-ints.info /<>/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.6% -- replaced with /<>/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /<>/debian/r-doc-info/usr/share/info/dir \ /<>/debian/r-doc-info/usr/share/info/dir.old removed '/<>/debian/r-doc-info/usr/share/info/dir' dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /<>/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 3092 -rw-rw-r-- 1 root root 2083194 Dec 15 23:28 libRmath.a -rwxrwxr-x 1 root root 1073672 Dec 15 23:28 libRmath.so drwxr-xr-x 2 root root 4096 Dec 15 23:28 pkgconfig renamed 'libRmath.so' -> 'libRmath.so.1.0.0' 'libRmath.so.1' -> 'libRmath.so.1.0.0' 'libRmath.so' -> 'libRmath.so.1' install -m 0644 src/include/Rmath.h \ /<>/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /<>/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /<>/debian/r-base-core/etc/R (cd /<>/debian/r-base-core/usr/lib/R/etc; \ cat /<>/debian/Renviron-R_LIBS.patch | patch --verbose; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- Renviron.orig 2003-04-04 06:52:22.000000000 -0500 |+++ Renviron 2003-04-04 06:49:05.000000000 -0500 -------------------------- patching file Renviron Using Plan A... Hunk #1 succeeded at 42 with fuzz 2 (offset 9 lines). done dh_bash-completion # edd 12 Jan 2016 new location #install -m 0644 debian/R.bash-completion \ # debian/r-base-core/usr/share/bash-completion/completions/R (cd /<>/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) './libR.so' -> 'R/lib/libR.so' (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core doc/NEWS.* README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib doc/NEWS.* README \ debian/README.mathlib dh_installdocs -pr-base-core-dbg dh_installexamples -pr-mathlib src/nmath/standalone/test.c #dh_installmenu -a # (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /<>/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /<>/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /<>/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib dh_installchangelogs -a -k doc/NEWS dh_strip --dbg-package=r-base-core-dbg dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /<>/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtcl8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtk8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package r-base-core: substitution variable ${perl:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing r-mathlib (in debian/r-mathlib); do_strip: , oemstrip: pkgstriptranslations: processing r-base-core-dbg (in debian/r-base-core-dbg); do_strip: , oemstrip: pkgstriptranslations: processing r-base-core (in debian/r-base-core); do_strip: , oemstrip: debian/r-base-core/usr/share/applications/R.desktop: does not have gettext domain, not stripping pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-mathlib/DEBIAN/control, package r-mathlib, directory debian/r-mathlib .. removing usr/share/doc/r-mathlib/changelog.gz INFO: pkgstripfiles: waiting for lock (r-mathlib) ... pkgstripfiles: processing control file: debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory debian/r-base-core-dbg .. removing usr/share/doc/r-base-core-dbg/changelog.gz INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... pkgstripfiles: processing control file: debian/r-base-core/DEBIAN/control, package r-base-core, directory debian/r-base-core .. removing usr/share/doc/r-base-core/changelog.gz pkgstripfiles: Truncating usr/share/doc/r-base-core/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-base-core ... WARNING: optipng failed on usr/lib/R/library/graphics/help/figures/mai.png, ignoring WARNING: optipng failed on usr/lib/R/library/graphics/help/figures/oma.png, ignoring WARNING: optipng failed on usr/lib/R/library/graphics/help/figures/pch.png, ignoring ..oINFO: pkgstripfiles: waiting for lock (r-mathlib) ... INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... oINFO: pkgstripfiles: waiting for lock (r-mathlib) ... INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... ooINFO: pkgstripfiles: waiting for lock (r-mathlib) ... INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... oooINFO: pkgstripfiles: waiting for lock (r-mathlib) ... INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... INFO: pkgstripfiles: waiting for lock (r-mathlib) ... o INFO: pkgstripfiles: waiting for lock (r-base-core-dbg) ... pkgstripfiles: PNG optimization (8/0) for package r-base-core took 5 s dpkg-deb: building package 'r-base-core' in '../r-base-core_3.5.1.20181215-1_amd64.deb'. pkgstripfiles: Truncating usr/share/doc/r-mathlib/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-mathlib ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-mathlib' in '../r-mathlib_3.5.1.20181215-1_amd64.deb'. Searching for duplicated docs in dependency r-base-core... symlinking changelog.Debian.gz in r-base-core-dbg to file in r-base-core pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-base-core-dbg ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-base-core-dbg' in '../r-base-core-dbg_3.5.1.20181215-1_amd64.deb'. *** binary-indep *** dh_testdir -i dh_testroot -i dh_link -i dh_installdocs -i dh_installdocs -v -pr-doc-html install -p -m0644 debian/copyright debian/r-doc-html/usr/share/doc/r-doc-html/copyright install -p -m0644 debian/r-doc-html.doc-base.intro debian/r-doc-html/usr/share/doc-base/r-intro install -p -m0644 debian/r-doc-html.doc-base.exts debian/r-doc-html/usr/share/doc-base/r-extensions install -p -m0644 debian/r-doc-html.doc-base.lang debian/r-doc-html/usr/share/doc-base/r-language install -p -m0644 debian/r-doc-html.doc-base.data debian/r-doc-html/usr/share/doc-base/r-data install -p -m0644 debian/r-doc-html.doc-base.ints debian/r-doc-html/usr/share/doc-base/r-ints install -p -m0644 debian/r-doc-html.doc-base.admin debian/r-doc-html/usr/share/doc-base/r-admin install -p -m0644 debian/r-doc-html.doc-base.faq debian/r-doc-html/usr/share/doc-base/r-faq dh_installchangelogs -i dh_installdirs -pr-base-dev usr/share/R/debian install -p -m 0755 debian/r-cran.mk \ /<>/debian/r-base-dev/usr/share/R/debian dh_compress -i dh_fixperms -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing r-doc-html (in debian/r-doc-html); do_strip: , oemstrip: pkgstriptranslations: processing r-recommended (in debian/r-recommended); do_strip: , oemstrip: pkgstriptranslations: processing r-base-html (in debian/r-base-html); do_strip: , oemstrip: pkgstriptranslations: processing r-base (in debian/r-base); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-doc-html/DEBIAN/control, package r-doc-html, directory debian/r-doc-html INFO: pkgstripfiles: waiting for lock (r-doc-html) ... pkgstripfiles: processing control file: debian/r-recommended/DEBIAN/control, package r-recommended, directory debian/r-recommended INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (r-doc-html) ... pkgstripfiles: processing control file: debian/r-base/DEBIAN/control, package r-base, directory debian/r-base Searching for duplicated docs in dependency r-base-core... INFO: pkgstripfiles: waiting for lock (r-recommended) ... symlinking changelog.Debian.gz in r-base to file in r-base-core Searching for duplicated docs in dependency r-recommended... pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-base ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-base' in '../r-base_3.5.1.20181215-1_all.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing r-base-dev (in debian/r-base-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... pkgstripfiles: processing control file: debian/r-base-dev/DEBIAN/control, package r-base-dev, directory debian/r-base-dev pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-base-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-base-dev' in '../r-base-dev_3.5.1.20181215-1_all.deb'. INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-base-html/DEBIAN/control, package r-base-html, directory debian/r-base-html Searching for duplicated docs in dependency r-base-core... INFO: pkgstripfiles: waiting for lock (r-doc-html) ... symlinking changelog.Debian.gz in r-base-html to file in r-base-core pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-base-html ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-base-html' in '../r-base-html_3.5.1.20181215-1_all.deb'. INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstriptranslations version 143 pkgstriptranslations: processing r-doc-pdf (in debian/r-doc-pdf); do_strip: , oemstrip: INFO: pkgstripfiles: waiting for lock (r-doc-html) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (r-recommended) ... pkgstripfiles: processing control file: debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory debian/r-doc-pdf pkgstripfiles: Truncating usr/share/doc/r-doc-pdf/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-doc-pdf ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-doc-pdf' in '../r-doc-pdf_3.5.1.20181215-1_all.deb'. pkgstripfiles: Truncating usr/share/doc/r-doc-html/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-doc-html ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-doc-html' in '../r-doc-html_3.5.1.20181215-1_all.deb'. INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstripfiles: waiting for lock (r-recommended) ... INFO: pkgstriptranslations version 143 pkgstriptranslations: processing r-doc-info (in debian/r-doc-info); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-doc-info/DEBIAN/control, package r-doc-info, directory debian/r-doc-info pkgstripfiles: Truncating usr/share/doc/r-doc-info/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-doc-info ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-doc-info' in '../r-doc-info_3.5.1.20181215-1_all.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-recommended ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-recommended' in '../r-recommended_3.5.1.20181215-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../r-base_3.5.1.20181215-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20181215-2329 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ r-base_3.5.1.20181215-1_amd64.changes: -------------------------------------- Format: 1.8 Date: Mon, 10 Dec 2018 19:34:07 -0600 Source: r-base Binary: r-base r-base-core r-base-dev r-mathlib r-base-html r-doc-pdf r-doc-html r-doc-info r-recommended r-base-core-dbg Architecture: amd64 all Version: 3.5.1.20181215-1 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Dirk Eddelbuettel Description: r-base - GNU R statistical computation and graphics system r-base-core - GNU R core of statistical computation and graphics system r-base-core-dbg - GNU R debug symbols for statistical comp. language and environmen r-base-dev - GNU R installation of auxiliary GNU R packages r-base-html - GNU R html docs for statistical computing system functions r-doc-html - GNU R html manuals for statistical computing system r-doc-info - GNU R info manuals statistical computing system r-doc-pdf - GNU R pdf manuals for statistical computing system r-mathlib - GNU R standalone mathematics library r-recommended - GNU R collection of recommended packages [metapackage] Changes: r-base (3.5.1.20181215-1) unstable; urgency=medium . * Initial rc release (r75850) of R 3.5.2 expected for Dec 20 . * debian/rules: Merge PR to pass more paths explicitly to configure (with thanks to Andreas Henriksson via merge request) . * debian/rules: Added a few more explicit paths (with thanks to Kurt Hornik via email following the merge request) Checksums-Sha1: a6fd99a926c7e3cb7b3b138f58d450b64d993d2c 6509804 r-base-core-dbg_3.5.1.20181215-1_amd64.deb 3d6e8099aa866e7fce0f20c96a8ac02c6d7aae03 23831840 r-base-core_3.5.1.20181215-1_amd64.deb 227fc13ee732750cd00ceb6f8db461031a44b5e2 4524 r-base-dev_3.5.1.20181215-1_all.deb 6b6bfec18b89724bb550fdb78732f907320c8c66 54968 r-base-html_3.5.1.20181215-1_all.deb 4d529eb654df781c5a2b12861191aff231715ade 9312 r-base_3.5.1.20181215-1_all.deb 878564c2b5513aafddf11b6eb514210e3449236a 18637 r-base_3.5.1.20181215-1_amd64.buildinfo 6afadbebd3f445102822c212220d1e92fb669f41 530784 r-doc-html_3.5.1.20181215-1_all.deb 19417a2d9ea2e1f9551eb1b74828fba3893caed4 592968 r-doc-info_3.5.1.20181215-1_all.deb f283f010543b6687a08dcfad04c96aa0e0a49126 9337472 r-doc-pdf_3.5.1.20181215-1_all.deb afd1a5e5abbecd1f0534c5fd4d452f3e97ac34c3 1731828 r-mathlib_3.5.1.20181215-1_amd64.deb 2b3da9c1ac21948119f592ebe69324038d90727f 2820 r-recommended_3.5.1.20181215-1_all.deb Checksums-Sha256: dda931e8cea4e57eb64e395a42c93a9c60a9faf8d95fa0cd25cdfed7f6b98fe4 6509804 r-base-core-dbg_3.5.1.20181215-1_amd64.deb 40cdf6cdae445dd935044cd0b6d35b9f56970990569fa7ac5363d264c7523c5b 23831840 r-base-core_3.5.1.20181215-1_amd64.deb 5ff27ace11b5bb78d046c3b1a197bbec333bdd6ac26b5750498e34b61b5b6fe1 4524 r-base-dev_3.5.1.20181215-1_all.deb 5eceb975420a80e6442ee1d49bb9162ebbe07ed777194250e08114d91b721094 54968 r-base-html_3.5.1.20181215-1_all.deb 47d2c3354dee2b75edc39d5b44a23e8bedbfe0f55d2d7ccc54c5f2e2497e4c43 9312 r-base_3.5.1.20181215-1_all.deb e08b9321b9a3bb8a81ea61d18e3247538569dc8cc5e3480cb76f7669c9922ae8 18637 r-base_3.5.1.20181215-1_amd64.buildinfo f9d44b004554d281dbc18577310e94a86820cbb6c179185de3c51e2a535c08f5 530784 r-doc-html_3.5.1.20181215-1_all.deb 821052ed8d143261799229f5a4404094286d2b27769ecfdf897c3495b15c3817 592968 r-doc-info_3.5.1.20181215-1_all.deb 7e49d78a2299ac88bcd8b98eddcbb724ddd79cfc17045e6514edcc8496b2f462 9337472 r-doc-pdf_3.5.1.20181215-1_all.deb 6edf565ee9f3d86e8ab8852a7633ba207e3c77d335b063f1f1ab25db62577734 1731828 r-mathlib_3.5.1.20181215-1_amd64.deb f2aefc64457911c711ebfa64650c56befaa5404cf8693c2b74da6d8c94bf4de3 2820 r-recommended_3.5.1.20181215-1_all.deb Files: 2a7181e74bf4be372b0a5488e31be0a3 6509804 debug optional r-base-core-dbg_3.5.1.20181215-1_amd64.deb 214f657e7fcd8288cb3fadd3084cae2f 23831840 gnu-r optional r-base-core_3.5.1.20181215-1_amd64.deb a7c6d6d3ae7893bc7ba05ea7fdd9edda 4524 gnu-r optional r-base-dev_3.5.1.20181215-1_all.deb 065625f8b62be0f6ac073d1fccbbed2f 54968 doc optional r-base-html_3.5.1.20181215-1_all.deb e3f6a629802eb86c6a6afd652e7bdc47 9312 gnu-r optional r-base_3.5.1.20181215-1_all.deb 8f9c994aa1e7010a50e86990250f6a1a 18637 gnu-r optional r-base_3.5.1.20181215-1_amd64.buildinfo b6be6e098b4c0d1ed652438802c59fad 530784 doc optional r-doc-html_3.5.1.20181215-1_all.deb 3068aa5ecd5419ece49ff9f0b48e7432 592968 doc optional r-doc-info_3.5.1.20181215-1_all.deb 767e7342b47454df95b7e646c2f34f07 9337472 doc optional r-doc-pdf_3.5.1.20181215-1_all.deb 5a1105d02c65c4e131fd779a8fc0ed64 1731828 gnu-r optional r-mathlib_3.5.1.20181215-1_amd64.deb d468e68a35baa13b476c6c9e4ee90220 2820 gnu-r optional r-recommended_3.5.1.20181215-1_all.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ r-base-core-dbg_3.5.1.20181215-1_amd64.deb ------------------------------------------ new debian package, version 2.0. size 6509804 bytes: control archive=2256 bytes. 2663 bytes, 40 lines control 2088 bytes, 20 lines md5sums Package: r-base-core-dbg Source: r-base Version: 3.5.1.20181215-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 6933 Depends: r-base-core (= 3.5.1.20181215-1), r-base-dev (= 3.5.1.20181215-1) Section: debug Priority: optional Homepage: http://www.r-project.org/ Description: GNU R debug symbols for statistical comp. language and environment R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package contains debugging symbol tables for the binaries and dynamic libraries in the r-base-core package. Build-Ids: 06dd3e899c53d747a94b886be8879c0299c8b287 098e7b29a761a09b6adbd2e014ceb2015e329427 134117db277e4f5e347248e3155cac36245d4d7e 1a1a07ed103951236958373b381b4de805993f50 228576051f8b41b2e448783f858070dd4ce96e98 29ec0de695410ac25e4418e2faaec1acd0a987ea 30c22869dcd333c20ab34d80ed3ccf0e7381b342 31208f23ed5aef74b6aef0a4d2906decbe1633ce 41fd1b29365104fe30c1b256060141216df5abb0 44da3ee8b48ecf447c0408197bb56279e2409ae8 560a9f278b9e922c3238ebe255e1b321e0f48430 5db8d715dfc860a25a31bbefe4f66804447c1b3f 6328a219df0165030618bbd30c439d61bf06b01c 656a04623d2392ea84e3fc7627ce51efb8e1aac4 7b252315fb54fe77ef2f9b809ef79b8db7627b4a b6af1fbe415e95fc78f1c459ccaceb9e7f4b82cf d4086017af8158a64563a4efafd6f1f036bb38c3 dea72f6958b01f02b2fb692387acf065218264ba e5b05857daf9d5adf6d4025bb80d8ff6d84a46ea drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/06/ -rw-r--r-- root/root 80320 2018-12-11 01:34 ./usr/lib/debug/.build-id/06/dd3e899c53d747a94b886be8879c0299c8b287.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/09/ -rw-r--r-- root/root 115272 2018-12-11 01:34 ./usr/lib/debug/.build-id/09/8e7b29a761a09b6adbd2e014ceb2015e329427.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/13/ -rw-r--r-- root/root 8072 2018-12-11 01:34 ./usr/lib/debug/.build-id/13/4117db277e4f5e347248e3155cac36245d4d7e.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/1a/ -rw-r--r-- root/root 13136 2018-12-11 01:34 ./usr/lib/debug/.build-id/1a/1a07ed103951236958373b381b4de805993f50.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/22/ -rw-r--r-- root/root 38856 2018-12-11 01:34 ./usr/lib/debug/.build-id/22/8576051f8b41b2e448783f858070dd4ce96e98.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/29/ -rw-r--r-- root/root 73904 2018-12-11 01:34 ./usr/lib/debug/.build-id/29/ec0de695410ac25e4418e2faaec1acd0a987ea.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/30/ -rw-r--r-- root/root 158896 2018-12-11 01:34 ./usr/lib/debug/.build-id/30/c22869dcd333c20ab34d80ed3ccf0e7381b342.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/31/ -rw-r--r-- root/root 402672 2018-12-11 01:34 ./usr/lib/debug/.build-id/31/208f23ed5aef74b6aef0a4d2906decbe1633ce.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/41/ -rw-r--r-- root/root 79504 2018-12-11 01:34 ./usr/lib/debug/.build-id/41/fd1b29365104fe30c1b256060141216df5abb0.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/44/ -rw-r--r-- root/root 59464 2018-12-11 01:34 ./usr/lib/debug/.build-id/44/da3ee8b48ecf447c0408197bb56279e2409ae8.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/56/ -rw-r--r-- root/root 148944 2018-12-11 01:34 ./usr/lib/debug/.build-id/56/0a9f278b9e922c3238ebe255e1b321e0f48430.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/5d/ -rw-r--r-- root/root 13424 2018-12-11 01:34 ./usr/lib/debug/.build-id/5d/b8d715dfc860a25a31bbefe4f66804447c1b3f.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/63/ -rw-r--r-- root/root 129552 2018-12-11 01:34 ./usr/lib/debug/.build-id/63/28a219df0165030618bbd30c439d61bf06b01c.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/65/ -rw-r--r-- root/root 57320 2018-12-11 01:34 ./usr/lib/debug/.build-id/65/6a04623d2392ea84e3fc7627ce51efb8e1aac4.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/7b/ -rw-r--r-- root/root 150264 2018-12-11 01:34 ./usr/lib/debug/.build-id/7b/252315fb54fe77ef2f9b809ef79b8db7627b4a.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/b6/ -rw-r--r-- root/root 803992 2018-12-11 01:34 ./usr/lib/debug/.build-id/b6/af1fbe415e95fc78f1c459ccaceb9e7f4b82cf.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/d4/ -rw-r--r-- root/root 238488 2018-12-11 01:34 ./usr/lib/debug/.build-id/d4/086017af8158a64563a4efafd6f1f036bb38c3.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/de/ -rw-r--r-- root/root 4066984 2018-12-11 01:34 ./usr/lib/debug/.build-id/de/a72f6958b01f02b2fb692387acf065218264ba.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/debug/.build-id/e5/ -rw-r--r-- root/root 266360 2018-12-11 01:34 ./usr/lib/debug/.build-id/e5/b05857daf9d5adf6d4025bb80d8ff6d84a46ea.debug drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core-dbg/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core-dbg/NEWS.gz -> changelog.gz lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core-dbg/changelog.Debian.gz -> ../r-base-core/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-base-core-dbg/copyright drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/overrides/ r-base-core_3.5.1.20181215-1_amd64.deb -------------------------------------- new debian package, version 2.0. size 23831840 bytes: control archive=23948 bytes. 93 bytes, 5 lines conffiles 2790 bytes, 45 lines control 73427 bytes, 932 lines md5sums 2433 bytes, 68 lines * postinst #!/bin/sh 214 bytes, 5 lines * postrm #!/bin/sh 864 bytes, 37 lines * preinst #!/bin/sh 886 bytes, 29 lines * prerm #!/bin/sh Package: r-base-core Source: r-base Version: 3.5.1.20181215-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 37400 Depends: zip, unzip, libpaper-utils, xdg-utils, libblas3 | libblas.so.3, libbz2-1.0, libc6 (>= 2.27), libcairo2 (>= 1.6.0), libcurl4 (>= 7.28.0), libglib2.0-0 (>= 2.12.0), libgomp1 (>= 4.9), libicu63 (>= 63.1-1~), libjpeg8 (>= 8c), liblapack3 | liblapack.so.3, liblzma5 (>= 5.1.1alpha+20120614), libpango-1.0-0 (>= 1.14.0), libpangocairo-1.0-0 (>= 1.14.0), libpcre3, libpng16-16 (>= 1.6.2-1), libreadline7 (>= 6.0), libtcl8.6 (>= 8.6.0), libtiff5 (>= 4.0.3), libtk8.6 (>= 8.6.0), libx11-6, libxt6, zlib1g (>= 1:1.1.4), ucf (>= 3.0), ca-certificates Recommends: r-recommended, r-base-dev, r-doc-html Suggests: ess, r-doc-info | r-doc-pdf, r-mathlib, r-base-html Conflicts: r-base-latex, r-cran-rcompgen, r-gnome Replaces: r-base (<= 1.4.1-1), r-base-latex (<= 2.9.2-4), r-cran-rcompgen (<= 0.1-17-1), r-gnome (<= 2.3.1), r-recommended (<< 1.9.0) Provides: r-api-3.5, r-base-latex, r-cran-rcompgen, r-gnome Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R core of statistical computation and graphics system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the core GNU R system from which only the optional documentation packages r-base-html, r-doc-html, r-doc-pdf and r-doc-info have been split off to somewhat reduce the size of this package. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./etc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./etc/R/ -rw-r--r-- root/root 8345 2018-12-11 01:34 ./etc/R/Makeconf -rw-r--r-- root/root 1024 2018-12-11 01:34 ./etc/R/Renviron.site -rw-r--r-- root/root 988 2018-12-11 01:34 ./etc/R/Rprofile.site -rw-r--r-- root/root 783 2018-12-11 01:34 ./etc/R/ldpaths -rw-r--r-- root/root 1095 2018-12-11 01:34 ./etc/R/repositories drwxr-xr-x root/root 0 2018-12-11 01:34 ./etc/ld.so.conf.d/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/bin/ -rwxr-xr-x root/root 8722 2018-12-11 01:34 ./usr/bin/R -rwxr-xr-x root/root 14344 2018-12-11 01:34 ./usr/bin/Rscript drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/COPYING -> ../../share/common-licenses/GPL-2 -rw-r--r-- root/root 46 2018-12-11 01:34 ./usr/lib/R/SVN-REVISION drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/bin/ -rwxr-xr-x root/root 1837 2018-12-11 01:34 ./usr/lib/R/bin/BATCH -rwxr-xr-x root/root 2165 2018-12-11 01:34 ./usr/lib/R/bin/COMPILE -rwxr-xr-x root/root 823 2018-12-11 01:34 ./usr/lib/R/bin/INSTALL -rwxr-xr-x root/root 1442 2018-12-11 01:34 ./usr/lib/R/bin/LINK -rwxr-xr-x root/root 8722 2018-12-11 01:34 ./usr/lib/R/bin/R -rwxr-xr-x root/root 158 2018-12-11 01:34 ./usr/lib/R/bin/REMOVE -rwxr-xr-x root/root 1375 2018-12-11 01:34 ./usr/lib/R/bin/Rcmd -rwxr-xr-x root/root 316 2018-12-11 01:34 ./usr/lib/R/bin/Rd2pdf -rwxr-xr-x root/root 359 2018-12-11 01:34 ./usr/lib/R/bin/Rdconv -rwxr-xr-x root/root 258 2018-12-11 01:34 ./usr/lib/R/bin/Rdiff -rwxr-xr-x root/root 310 2018-12-11 01:34 ./usr/lib/R/bin/Rprof -rwxr-xr-x root/root 14344 2018-12-11 01:34 ./usr/lib/R/bin/Rscript -rwxr-xr-x root/root 155 2018-12-11 01:34 ./usr/lib/R/bin/SHLIB -rwxr-xr-x root/root 318 2018-12-11 01:34 ./usr/lib/R/bin/Stangle -rwxr-xr-x root/root 316 2018-12-11 01:34 ./usr/lib/R/bin/Sweave -rwxr-xr-x root/root 350 2018-12-11 01:34 ./usr/lib/R/bin/build -rwxr-xr-x root/root 317 2018-12-11 01:34 ./usr/lib/R/bin/check -rwxr-xr-x root/root 11377 2018-12-11 01:34 ./usr/lib/R/bin/config drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/bin/exec/ -rwxr-xr-x root/root 14328 2018-12-11 01:34 ./usr/lib/R/bin/exec/R -rwxr-xr-x root/root 3618 2018-12-11 01:34 ./usr/lib/R/bin/f77_f2c -rwxr-xr-x root/root 14530 2018-12-11 01:34 ./usr/lib/R/bin/javareconf -rwxr-xr-x root/root 355854 2018-12-11 01:34 ./usr/lib/R/bin/libtool -rwxr-xr-x root/root 3496 2018-12-11 01:34 ./usr/lib/R/bin/mkinstalldirs -rwxr-xr-x root/root 483 2018-12-11 01:34 ./usr/lib/R/bin/pager -rwxr-xr-x root/root 4121 2018-12-11 01:34 ./usr/lib/R/bin/rtags drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/Makeconf -> /etc/R/Makeconf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/Renviron -> /etc/R/Renviron -rw-r--r-- root/root 1484 2018-12-11 01:34 ./usr/lib/R/etc/Renviron.orig lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/Renviron.site -> /etc/R/Renviron.site -rw-r--r-- root/root 1787 2018-12-11 01:34 ./usr/lib/R/etc/Renviron.ucf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/Rprofile.site -> /etc/R/Rprofile.site -rw-r--r-- root/root 234 2018-12-11 01:34 ./usr/lib/R/etc/javaconf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/ldpaths -> /etc/R/ldpaths lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/R/etc/repositories -> /etc/R/repositories drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/lib/ -rw-r--r-- root/root 3314016 2018-12-11 01:34 ./usr/lib/R/lib/libR.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/ -rw-r--r-- root/root 956 2018-12-11 01:34 ./usr/lib/R/library/base/CITATION -rw-r--r-- root/root 286 2018-12-11 01:34 ./usr/lib/R/library/base/DESCRIPTION -rw-r--r-- root/root 23853 2018-12-11 01:34 ./usr/lib/R/library/base/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/ -rw-r--r-- root/root 21545 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/Rd.rds -rw-r--r-- root/root 245 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/demo.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/features.rds -rw-r--r-- root/root 22141 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/hsearch.rds -rw-r--r-- root/root 12841 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/links.rds -rw-r--r-- root/root 502 2018-12-11 01:34 ./usr/lib/R/library/base/Meta/package.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/R/ -rw-r--r-- root/root 5969 2018-12-11 01:34 ./usr/lib/R/library/base/R/Rprofile -rw-r--r-- root/root 5387 2018-12-11 01:34 ./usr/lib/R/library/base/R/base -rw-r--r-- root/root 973209 2018-12-11 01:34 ./usr/lib/R/library/base/R/base.rdb -rw-r--r-- root/root 13312 2018-12-11 01:34 ./usr/lib/R/library/base/R/base.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/demo/ -rw-r--r-- root/root 1179 2018-12-11 01:34 ./usr/lib/R/library/base/demo/error.catching.R -rw-r--r-- root/root 4252 2018-12-11 01:34 ./usr/lib/R/library/base/demo/is.things.R -rw-r--r-- root/root 2115 2018-12-11 01:34 ./usr/lib/R/library/base/demo/recursion.R -rw-r--r-- root/root 1560 2018-12-11 01:34 ./usr/lib/R/library/base/demo/scoping.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/help/ -rw-r--r-- root/root 33677 2018-12-11 01:34 ./usr/lib/R/library/base/help/AnIndex -rw-r--r-- root/root 11994 2018-12-11 01:34 ./usr/lib/R/library/base/help/aliases.rds -rw-r--r-- root/root 2125105 2018-12-11 01:34 ./usr/lib/R/library/base/help/base.rdb -rw-r--r-- root/root 9051 2018-12-11 01:34 ./usr/lib/R/library/base/help/base.rdx -rw-r--r-- root/root 3082 2018-12-11 01:34 ./usr/lib/R/library/base/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/ -rw-r--r-- root/root 283 2018-12-11 01:34 ./usr/lib/R/library/compiler/DESCRIPTION -rw-r--r-- root/root 43 2018-12-11 01:34 ./usr/lib/R/library/compiler/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/ -rw-r--r-- root/root 301 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/features.rds -rw-r--r-- root/root 374 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/hsearch.rds -rw-r--r-- root/root 209 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/links.rds -rw-r--r-- root/root 253 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/nsInfo.rds -rw-r--r-- root/root 483 2018-12-11 01:34 ./usr/lib/R/library/compiler/Meta/package.rds -rw-r--r-- root/root 127 2018-12-11 01:34 ./usr/lib/R/library/compiler/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/compiler/R/compiler -rw-r--r-- root/root 189867 2018-12-11 01:34 ./usr/lib/R/library/compiler/R/compiler.rdb -rw-r--r-- root/root 3485 2018-12-11 01:34 ./usr/lib/R/library/compiler/R/compiler.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/ -rw-r--r-- root/root 174 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/AnIndex -rw-r--r-- root/root 145 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/aliases.rds -rw-r--r-- root/root 8299 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/compiler.rdb -rw-r--r-- root/root 149 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/compiler.rdx -rw-r--r-- root/root 133 2018-12-11 01:34 ./usr/lib/R/library/compiler/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/ -rw-r--r-- root/root 275 2018-12-11 01:34 ./usr/lib/R/library/datasets/DESCRIPTION -rw-r--r-- root/root 5661 2018-12-11 01:34 ./usr/lib/R/library/datasets/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/ -rw-r--r-- root/root 3664 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/Rd.rds -rw-r--r-- root/root 2697 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/data.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/features.rds -rw-r--r-- root/root 3263 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/hsearch.rds -rw-r--r-- root/root 1364 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/links.rds -rw-r--r-- root/root 180 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/nsInfo.rds -rw-r--r-- root/root 474 2018-12-11 01:34 ./usr/lib/R/library/datasets/Meta/package.rds -rw-r--r-- root/root 71 2018-12-11 01:34 ./usr/lib/R/library/datasets/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/data/ -rw-r--r-- root/root 113057 2018-12-11 01:34 ./usr/lib/R/library/datasets/data/Rdata.rdb -rw-r--r-- root/root 1062 2018-12-11 01:34 ./usr/lib/R/library/datasets/data/Rdata.rds -rw-r--r-- root/root 1527 2018-12-11 01:34 ./usr/lib/R/library/datasets/data/Rdata.rdx -rw-r--r-- root/root 2122 2018-12-11 01:34 ./usr/lib/R/library/datasets/data/morley.tab drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/ -rw-r--r-- root/root 2036 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/AnIndex -rw-r--r-- root/root 902 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/aliases.rds -rw-r--r-- root/root 211638 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/datasets.rdb -rw-r--r-- root/root 2123 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/datasets.rdx -rw-r--r-- root/root 862 2018-12-11 01:34 ./usr/lib/R/library/datasets/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/ -rw-r--r-- root/root 412 2018-12-11 01:34 ./usr/lib/R/library/grDevices/DESCRIPTION -rw-r--r-- root/root 3920 2018-12-11 01:34 ./usr/lib/R/library/grDevices/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/ -rw-r--r-- root/root 3039 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/Rd.rds -rw-r--r-- root/root 133 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/demo.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/features.rds -rw-r--r-- root/root 2999 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/hsearch.rds -rw-r--r-- root/root 1503 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/links.rds -rw-r--r-- root/root 1124 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/nsInfo.rds -rw-r--r-- root/root 577 2018-12-11 01:34 ./usr/lib/R/library/grDevices/Meta/package.rds -rw-r--r-- root/root 2492 2018-12-11 01:34 ./usr/lib/R/library/grDevices/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/grDevices/R/grDevices -rw-r--r-- root/root 201512 2018-12-11 01:34 ./usr/lib/R/library/grDevices/R/grDevices.rdb -rw-r--r-- root/root 2560 2018-12-11 01:34 ./usr/lib/R/library/grDevices/R/grDevices.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ -rw-r--r-- root/root 8341 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ArialMT-Bold.afm.gz -rw-r--r-- root/root 8291 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ArialMT-BoldItalic.afm.gz -rw-r--r-- root/root 8343 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ArialMT-Italic.afm.gz -rw-r--r-- root/root 8556 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ArialMT.afm.gz -rw-r--r-- root/root 3037 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/CM_boldx_10.afm.gz -rw-r--r-- root/root 3126 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/CM_boldx_italic_10.afm.gz -rw-r--r-- root/root 3031 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/CM_italic_10.afm.gz -rw-r--r-- root/root 2935 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/CM_regular_10.afm.gz -rw-r--r-- root/root 2237 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/CM_symbol_10.afm.gz -rw-r--r-- root/root 3967 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Courier-Bold.afm.gz -rw-r--r-- root/root 4088 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Courier-BoldOblique.afm.gz -rw-r--r-- root/root 4082 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Courier-Oblique.afm.gz -rw-r--r-- root/root 3961 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Courier.afm.gz -rw-r--r-- root/root 12984 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Helvetica-Bold.afm.gz -rw-r--r-- root/root 13187 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Helvetica-BoldOblique.afm.gz -rw-r--r-- root/root 13803 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Helvetica-Oblique.afm.gz -rw-r--r-- root/root 13624 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Helvetica.afm.gz -rw-r--r-- root/root 1001 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/MustRead.html -rw-r--r-- root/root 851 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/README -rw-r--r-- root/root 3432 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Symbol.afm.gz -rw-r--r-- root/root 12314 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Times-Bold.afm.gz -rw-r--r-- root/root 11690 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Times-BoldItalic.afm.gz -rw-r--r-- root/root 12641 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Times-Italic.afm.gz -rw-r--r-- root/root 11829 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/Times-Roman.afm.gz -rw-r--r-- root/root 2527 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ZapfDingbats.afm.gz -rw-r--r-- root/root 10212 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/a010013l.afm.gz -rw-r--r-- root/root 10035 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/a010015l.afm.gz -rw-r--r-- root/root 10260 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/a010033l.afm.gz -rw-r--r-- root/root 10177 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/a010035l.afm.gz -rw-r--r-- root/root 4890 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/agd_____.afm.gz -rw-r--r-- root/root 4965 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/agdo____.afm.gz -rw-r--r-- root/root 5046 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/agw_____.afm.gz -rw-r--r-- root/root 5126 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/agwo____.afm.gz -rw-r--r-- root/root 10240 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/b018012l.afm.gz -rw-r--r-- root/root 10074 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/b018015l.afm.gz -rw-r--r-- root/root 10348 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/b018032l.afm.gz -rw-r--r-- root/root 10346 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/b018035l.afm.gz -rw-r--r-- root/root 4241 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/bkd_____.afm.gz -rw-r--r-- root/root 4356 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/bkdi____.afm.gz -rw-r--r-- root/root 4244 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/bkl_____.afm.gz -rw-r--r-- root/root 4318 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/bkli____.afm.gz -rw-r--r-- root/root 10330 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/c059013l.afm.gz -rw-r--r-- root/root 10234 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/c059016l.afm.gz -rw-r--r-- root/root 10527 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/c059033l.afm.gz -rw-r--r-- root/root 10461 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/c059036l.afm.gz -rw-r--r-- root/root 2924 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/cmbxti10.afm.gz -rw-r--r-- root/root 2904 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/cmti10.afm.gz -rw-r--r-- root/root 3960 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/cob_____.afm.gz -rw-r--r-- root/root 4071 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/cobo____.afm.gz -rw-r--r-- root/root 3959 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/com_____.afm.gz -rw-r--r-- root/root 4079 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/coo_____.afm.gz -rw-r--r-- root/root 4813 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hv______.afm.gz -rw-r--r-- root/root 4678 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvb_____.afm.gz -rw-r--r-- root/root 4820 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvbo____.afm.gz -rw-r--r-- root/root 4797 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvn_____.afm.gz -rw-r--r-- root/root 4662 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvnb____.afm.gz -rw-r--r-- root/root 4813 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvnbo___.afm.gz -rw-r--r-- root/root 4950 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvno____.afm.gz -rw-r--r-- root/root 4964 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/hvo_____.afm.gz -rw-r--r-- root/root 10204 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019003l.afm.gz -rw-r--r-- root/root 10032 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019004l.afm.gz -rw-r--r-- root/root 10471 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019023l.afm.gz -rw-r--r-- root/root 10310 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019024l.afm.gz -rw-r--r-- root/root 10082 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019043l.afm.gz -rw-r--r-- root/root 9772 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019044l.afm.gz -rw-r--r-- root/root 10271 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019063l.afm.gz -rw-r--r-- root/root 10153 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n019064l.afm.gz -rw-r--r-- root/root 10526 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n021003l.afm.gz -rw-r--r-- root/root 10342 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n021004l.afm.gz -rw-r--r-- root/root 10532 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n021023l.afm.gz -rw-r--r-- root/root 10512 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n021024l.afm.gz -rw-r--r-- root/root 5464 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n022003l.afm.gz -rw-r--r-- root/root 5561 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n022004l.afm.gz -rw-r--r-- root/root 5859 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n022023l.afm.gz -rw-r--r-- root/root 5841 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/n022024l.afm.gz -rw-r--r-- root/root 4268 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ncb_____.afm.gz -rw-r--r-- root/root 4908 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ncbi____.afm.gz -rw-r--r-- root/root 4506 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/nci_____.afm.gz -rw-r--r-- root/root 4440 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/ncr_____.afm.gz -rw-r--r-- root/root 10408 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/p052003l.afm.gz -rw-r--r-- root/root 10217 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/p052004l.afm.gz -rw-r--r-- root/root 10511 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/p052023l.afm.gz -rw-r--r-- root/root 10268 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/p052024l.afm.gz -rw-r--r-- root/root 4382 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/pob_____.afm.gz -rw-r--r-- root/root 4419 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/pobi____.afm.gz -rw-r--r-- root/root 4441 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/poi_____.afm.gz -rw-r--r-- root/root 4473 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/por_____.afm.gz -rw-r--r-- root/root 3370 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/s050000l.afm.gz -rw-r--r-- root/root 3385 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/sy______.afm.gz -rw-r--r-- root/root 4992 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/tib_____.afm.gz -rw-r--r-- root/root 5089 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/tibi____.afm.gz -rw-r--r-- root/root 5094 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/tii_____.afm.gz -rw-r--r-- root/root 4970 2018-12-11 01:34 ./usr/lib/R/library/grDevices/afm/tir_____.afm.gz drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/demo/ -rw-r--r-- root/root 3747 2018-12-11 01:34 ./usr/lib/R/library/grDevices/demo/colors.R -rw-r--r-- root/root 2588 2018-12-11 01:34 ./usr/lib/R/library/grDevices/demo/hclColors.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/ -rw-r--r-- root/root 2094 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/AdobeStd.enc -rw-r--r-- root/root 2514 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/AdobeSym.enc -rw-r--r-- root/root 2224 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/CP1250.enc -rw-r--r-- root/root 2389 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/CP1251.enc -rw-r--r-- root/root 2185 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/CP1253.enc -rw-r--r-- root/root 2247 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/CP1257.enc -rw-r--r-- root/root 2349 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/Cyrillic.enc -rw-r--r-- root/root 2212 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/Greek.enc -rw-r--r-- root/root 2213 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/ISOLatin1.enc -rw-r--r-- root/root 2187 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/ISOLatin2.enc -rw-r--r-- root/root 2272 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/ISOLatin7.enc -rw-r--r-- root/root 2196 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/ISOLatin9.enc -rw-r--r-- root/root 2290 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/KOI8-R.enc -rw-r--r-- root/root 2308 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/KOI8-U.enc -rw-r--r-- root/root 2262 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/MacRoman.enc -rw-r--r-- root/root 2207 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/PDFDoc.enc -rw-r--r-- root/root 2091 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/TeXtext.enc -rw-r--r-- root/root 2311 2018-12-11 01:34 ./usr/lib/R/library/grDevices/enc/WinAnsi.enc drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/ -rw-r--r-- root/root 2883 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/AnIndex -rw-r--r-- root/root 1249 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/aliases.rds -rw-r--r-- root/root 339507 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/grDevices.rdb -rw-r--r-- root/root 1620 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/grDevices.rdx -rw-r--r-- root/root 669 2018-12-11 01:34 ./usr/lib/R/library/grDevices/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/icc/ -rw-r--r-- root/root 9521 2018-12-11 01:34 ./usr/lib/R/library/grDevices/icc/srgb -rw-r--r-- root/root 2680 2018-12-11 01:34 ./usr/lib/R/library/grDevices/icc/srgb.flate drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/libs/ -rw-r--r-- root/root 44072 2018-12-11 01:34 ./usr/lib/R/library/grDevices/libs/cairo.so -rw-r--r-- root/root 253248 2018-12-11 01:34 ./usr/lib/R/library/grDevices/libs/grDevices.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/ -rw-r--r-- root/root 349 2018-12-11 01:34 ./usr/lib/R/library/graphics/DESCRIPTION -rw-r--r-- root/root 3773 2018-12-11 01:34 ./usr/lib/R/library/graphics/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/ -rw-r--r-- root/root 3187 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/Rd.rds -rw-r--r-- root/root 262 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/demo.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/features.rds -rw-r--r-- root/root 3145 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/hsearch.rds -rw-r--r-- root/root 1320 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/links.rds -rw-r--r-- root/root 1154 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/nsInfo.rds -rw-r--r-- root/root 553 2018-12-11 01:34 ./usr/lib/R/library/graphics/Meta/package.rds -rw-r--r-- root/root 2729 2018-12-11 01:34 ./usr/lib/R/library/graphics/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/graphics/R/graphics -rw-r--r-- root/root 314243 2018-12-11 01:34 ./usr/lib/R/library/graphics/R/graphics.rdb -rw-r--r-- root/root 1819 2018-12-11 01:34 ./usr/lib/R/library/graphics/R/graphics.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/ -rw-r--r-- root/root 19972 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/Hershey.R -rw-r--r-- root/root 34519 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/Japanese.R -rw-r--r-- root/root 5039 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/graphics.R -rw-r--r-- root/root 1105 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/image.R -rw-r--r-- root/root 2791 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/persp.R -rw-r--r-- root/root 8666 2018-12-11 01:34 ./usr/lib/R/library/graphics/demo/plotmath.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/ -rw-r--r-- root/root 2533 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/AnIndex -rw-r--r-- root/root 996 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/aliases.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/ -rw-r--r-- root/root 2541 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/mai.pdf -rw-r--r-- root/root 4667 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/mai.png -rw-r--r-- root/root 3763 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/oma.pdf -rw-r--r-- root/root 5114 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/oma.png -rw-r--r-- root/root 4994 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/pch.pdf -rw-r--r-- root/root 5475 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/pch.png -rw-r--r-- root/root 27187 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/figures/pch.svg -rw-r--r-- root/root 472254 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/graphics.rdb -rw-r--r-- root/root 1717 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/graphics.rdx -rw-r--r-- root/root 650 2018-12-11 01:34 ./usr/lib/R/library/graphics/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/libs/ -rw-r--r-- root/root 306160 2018-12-11 01:34 ./usr/lib/R/library/graphics/libs/graphics.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/ -rw-r--r-- root/root 427 2018-12-11 01:34 ./usr/lib/R/library/grid/DESCRIPTION -rw-r--r-- root/root 4953 2018-12-11 01:34 ./usr/lib/R/library/grid/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/ -rw-r--r-- root/root 3530 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/features.rds -rw-r--r-- root/root 3498 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/hsearch.rds -rw-r--r-- root/root 1937 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/links.rds -rw-r--r-- root/root 2079 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/nsInfo.rds -rw-r--r-- root/root 639 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/package.rds -rw-r--r-- root/root 602 2018-12-11 01:34 ./usr/lib/R/library/grid/Meta/vignette.rds -rw-r--r-- root/root 12939 2018-12-11 01:34 ./usr/lib/R/library/grid/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/grid/R/grid -rw-r--r-- root/root 455457 2018-12-11 01:34 ./usr/lib/R/library/grid/R/grid.rdb -rw-r--r-- root/root 8615 2018-12-11 01:34 ./usr/lib/R/library/grid/R/grid.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/ -rw-r--r-- root/root 2211 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/DivByZero.txt -rw-r--r-- root/root 56853 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/changes.txt -rw-r--r-- root/root 4547 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/displaylist.R -rw-r--r-- root/root 9796 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/displaylist.Rnw -rw-r--r-- root/root 157590 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/displaylist.pdf -rw-r--r-- root/root 4960 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/frame.R -rw-r--r-- root/root 16260 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/frame.Rnw -rw-r--r-- root/root 156198 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/frame.pdf -rw-r--r-- root/root 7586 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grid.R -rw-r--r-- root/root 25135 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grid.Rnw -rw-r--r-- root/root 233161 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grid.pdf -rw-r--r-- root/root 10912 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grobs.R -rw-r--r-- root/root 19100 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grobs.Rnw -rw-r--r-- root/root 107368 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/grobs.pdf -rw-r--r-- root/root 7187 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/index.html -rw-r--r-- root/root 3160 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/interactive.R -rw-r--r-- root/root 4420 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/interactive.Rnw -rw-r--r-- root/root 91073 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/interactive.pdf -rw-r--r-- root/root 2624 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/locndimn.R -rw-r--r-- root/root 4422 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/locndimn.Rnw -rw-r--r-- root/root 89718 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/locndimn.pdf -rw-r--r-- root/root 985 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/moveline.R -rw-r--r-- root/root 2143 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/moveline.Rnw -rw-r--r-- root/root 87474 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/moveline.pdf -rw-r--r-- root/root 2226 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/nonfinite.R -rw-r--r-- root/root 4520 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/nonfinite.Rnw -rw-r--r-- root/root 79706 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/nonfinite.pdf -rw-r--r-- root/root 16582 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/plotexample.R -rw-r--r-- root/root 22649 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/plotexample.Rnw -rw-r--r-- root/root 223852 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/plotexample.pdf -rw-r--r-- root/root 6863 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/rotated.R -rw-r--r-- root/root 5116 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/rotated.Rnw -rw-r--r-- root/root 121989 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/rotated.pdf -rw-r--r-- root/root 1054 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/saveload.R -rw-r--r-- root/root 3874 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/saveload.Rnw -rw-r--r-- root/root 134083 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/saveload.pdf -rw-r--r-- root/root 4093 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/sharing.R -rw-r--r-- root/root 3076 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/sharing.Rnw -rw-r--r-- root/root 71037 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/sharing.pdf -rw-r--r-- root/root 8880 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/viewports.R -rw-r--r-- root/root 11209 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/viewports.Rnw -rw-r--r-- root/root 163337 2018-12-11 01:34 ./usr/lib/R/library/grid/doc/viewports.pdf drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/help/ -rw-r--r-- root/root 4932 2018-12-11 01:34 ./usr/lib/R/library/grid/help/AnIndex -rw-r--r-- root/root 1604 2018-12-11 01:34 ./usr/lib/R/library/grid/help/aliases.rds -rw-r--r-- root/root 269933 2018-12-11 01:34 ./usr/lib/R/library/grid/help/grid.rdb -rw-r--r-- root/root 1990 2018-12-11 01:34 ./usr/lib/R/library/grid/help/grid.rdx -rw-r--r-- root/root 784 2018-12-11 01:34 ./usr/lib/R/library/grid/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/libs/ -rw-r--r-- root/root 129976 2018-12-11 01:34 ./usr/lib/R/library/grid/libs/grid.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/ -rw-r--r-- root/root 541 2018-12-11 01:34 ./usr/lib/R/library/methods/DESCRIPTION -rw-r--r-- root/root 5203 2018-12-11 01:34 ./usr/lib/R/library/methods/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/ -rw-r--r-- root/root 5771 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/features.rds -rw-r--r-- root/root 5835 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/hsearch.rds -rw-r--r-- root/root 4043 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/links.rds -rw-r--r-- root/root 1772 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/nsInfo.rds -rw-r--r-- root/root 696 2018-12-11 01:34 ./usr/lib/R/library/methods/Meta/package.rds -rw-r--r-- root/root 5567 2018-12-11 01:34 ./usr/lib/R/library/methods/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/methods/R/methods -rw-r--r-- root/root 1281949 2018-12-11 01:34 ./usr/lib/R/library/methods/R/methods.rdb -rw-r--r-- root/root 14503 2018-12-11 01:34 ./usr/lib/R/library/methods/R/methods.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/help/ -rw-r--r-- root/root 14357 2018-12-11 01:34 ./usr/lib/R/library/methods/help/AnIndex -rw-r--r-- root/root 4093 2018-12-11 01:34 ./usr/lib/R/library/methods/help/aliases.rds -rw-r--r-- root/root 516062 2018-12-11 01:34 ./usr/lib/R/library/methods/help/methods.rdb -rw-r--r-- root/root 2037 2018-12-11 01:34 ./usr/lib/R/library/methods/help/methods.rdx -rw-r--r-- root/root 897 2018-12-11 01:34 ./usr/lib/R/library/methods/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/libs/ -rw-r--r-- root/root 47680 2018-12-11 01:34 ./usr/lib/R/library/methods/libs/methods.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/ -rw-r--r-- root/root 516 2018-12-11 01:34 ./usr/lib/R/library/parallel/DESCRIPTION -rw-r--r-- root/root 914 2018-12-11 01:34 ./usr/lib/R/library/parallel/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/ -rw-r--r-- root/root 968 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/features.rds -rw-r--r-- root/root 1003 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/hsearch.rds -rw-r--r-- root/root 502 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/links.rds -rw-r--r-- root/root 627 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/nsInfo.rds -rw-r--r-- root/root 662 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/package.rds -rw-r--r-- root/root 203 2018-12-11 01:34 ./usr/lib/R/library/parallel/Meta/vignette.rds -rw-r--r-- root/root 1371 2018-12-11 01:34 ./usr/lib/R/library/parallel/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/parallel/R/parallel -rw-r--r-- root/root 93935 2018-12-11 01:34 ./usr/lib/R/library/parallel/R/parallel.rdb -rw-r--r-- root/root 1787 2018-12-11 01:34 ./usr/lib/R/library/parallel/R/parallel.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/doc/ -rw-r--r-- root/root 1339 2018-12-11 01:34 ./usr/lib/R/library/parallel/doc/index.html -rw-r--r-- root/root 11535 2018-12-11 01:34 ./usr/lib/R/library/parallel/doc/parallel.R -rw-r--r-- root/root 38743 2018-12-11 01:34 ./usr/lib/R/library/parallel/doc/parallel.Rnw -rw-r--r-- root/root 295822 2018-12-11 01:34 ./usr/lib/R/library/parallel/doc/parallel.pdf drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/ -rw-r--r-- root/root 1053 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/AnIndex -rw-r--r-- root/root 447 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/aliases.rds -rw-r--r-- root/root 73879 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/parallel.rdb -rw-r--r-- root/root 465 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/parallel.rdx -rw-r--r-- root/root 265 2018-12-11 01:34 ./usr/lib/R/library/parallel/help/paths.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/libs/ -rw-r--r-- root/root 31160 2018-12-11 01:34 ./usr/lib/R/library/parallel/libs/parallel.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/ -rw-r--r-- root/root 457 2018-12-11 01:34 ./usr/lib/R/library/splines/DESCRIPTION -rw-r--r-- root/root 832 2018-12-11 01:34 ./usr/lib/R/library/splines/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/ -rw-r--r-- root/root 725 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/features.rds -rw-r--r-- root/root 723 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/hsearch.rds -rw-r--r-- root/root 323 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/links.rds -rw-r--r-- root/root 573 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/nsInfo.rds -rw-r--r-- root/root 651 2018-12-11 01:34 ./usr/lib/R/library/splines/Meta/package.rds -rw-r--r-- root/root 1425 2018-12-11 01:34 ./usr/lib/R/library/splines/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/splines/R/splines -rw-r--r-- root/root 52062 2018-12-11 01:34 ./usr/lib/R/library/splines/R/splines.rdb -rw-r--r-- root/root 798 2018-12-11 01:34 ./usr/lib/R/library/splines/R/splines.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/help/ -rw-r--r-- root/root 541 2018-12-11 01:34 ./usr/lib/R/library/splines/help/AnIndex -rw-r--r-- root/root 229 2018-12-11 01:34 ./usr/lib/R/library/splines/help/aliases.rds -rw-r--r-- root/root 258 2018-12-11 01:34 ./usr/lib/R/library/splines/help/paths.rds -rw-r--r-- root/root 39624 2018-12-11 01:34 ./usr/lib/R/library/splines/help/splines.rdb -rw-r--r-- root/root 444 2018-12-11 01:34 ./usr/lib/R/library/splines/help/splines.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/libs/ -rw-r--r-- root/root 14488 2018-12-11 01:34 ./usr/lib/R/library/splines/libs/splines.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/ -rw-r--r-- root/root 1552 2018-12-11 01:34 ./usr/lib/R/library/stats/COPYRIGHTS.modreg -rw-r--r-- root/root 405 2018-12-11 01:34 ./usr/lib/R/library/stats/DESCRIPTION -rw-r--r-- root/root 18782 2018-12-11 01:34 ./usr/lib/R/library/stats/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/ -rw-r--r-- root/root 12918 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/Rd.rds -rw-r--r-- root/root 266 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/demo.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/features.rds -rw-r--r-- root/root 12987 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/hsearch.rds -rw-r--r-- root/root 6452 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/links.rds -rw-r--r-- root/root 4369 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/nsInfo.rds -rw-r--r-- root/root 661 2018-12-11 01:34 ./usr/lib/R/library/stats/Meta/package.rds -rw-r--r-- root/root 16762 2018-12-11 01:34 ./usr/lib/R/library/stats/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/stats/R/stats -rw-r--r-- root/root 1601038 2018-12-11 01:34 ./usr/lib/R/library/stats/R/stats.rdb -rw-r--r-- root/root 10873 2018-12-11 01:34 ./usr/lib/R/library/stats/R/stats.rdx -rw-r--r-- root/root 550 2018-12-11 01:34 ./usr/lib/R/library/stats/SOURCES.ts drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/demo/ -rw-r--r-- root/root 744 2018-12-11 01:34 ./usr/lib/R/library/stats/demo/glm.vr.R -rw-r--r-- root/root 4993 2018-12-11 01:34 ./usr/lib/R/library/stats/demo/lm.glm.R -rw-r--r-- root/root 3250 2018-12-11 01:34 ./usr/lib/R/library/stats/demo/nlm.R -rw-r--r-- root/root 1282 2018-12-11 01:34 ./usr/lib/R/library/stats/demo/smooth.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/help/ -rw-r--r-- root/root 16057 2018-12-11 01:34 ./usr/lib/R/library/stats/help/AnIndex -rw-r--r-- root/root 5322 2018-12-11 01:34 ./usr/lib/R/library/stats/help/aliases.rds -rw-r--r-- root/root 2383 2018-12-11 01:34 ./usr/lib/R/library/stats/help/paths.rds -rw-r--r-- root/root 1569042 2018-12-11 01:34 ./usr/lib/R/library/stats/help/stats.rdb -rw-r--r-- root/root 7154 2018-12-11 01:34 ./usr/lib/R/library/stats/help/stats.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/libs/ -rw-r--r-- root/root 681464 2018-12-11 01:34 ./usr/lib/R/library/stats/libs/stats.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/ -rw-r--r-- root/root 346 2018-12-11 01:34 ./usr/lib/R/library/stats4/DESCRIPTION -rw-r--r-- root/root 1215 2018-12-11 01:34 ./usr/lib/R/library/stats4/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/ -rw-r--r-- root/root 791 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/features.rds -rw-r--r-- root/root 822 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/hsearch.rds -rw-r--r-- root/root 420 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/links.rds -rw-r--r-- root/root 416 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/nsInfo.rds -rw-r--r-- root/root 558 2018-12-11 01:34 ./usr/lib/R/library/stats4/Meta/package.rds -rw-r--r-- root/root 694 2018-12-11 01:34 ./usr/lib/R/library/stats4/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/stats4/R/stats4 -rw-r--r-- root/root 115172 2018-12-11 01:34 ./usr/lib/R/library/stats4/R/stats4.rdb -rw-r--r-- root/root 1074 2018-12-11 01:34 ./usr/lib/R/library/stats4/R/stats4.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/ -rw-r--r-- root/root 1120 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/AnIndex -rw-r--r-- root/root 350 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/aliases.rds -rw-r--r-- root/root 263 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/paths.rds -rw-r--r-- root/root 30752 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/stats4.rdb -rw-r--r-- root/root 454 2018-12-11 01:34 ./usr/lib/R/library/stats4/help/stats4.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/ -rw-r--r-- root/root 334 2018-12-11 01:34 ./usr/lib/R/library/tcltk/DESCRIPTION -rw-r--r-- root/root 626 2018-12-11 01:34 ./usr/lib/R/library/tcltk/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/ -rw-r--r-- root/root 2375 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/Rd.rds -rw-r--r-- root/root 267 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/demo.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/features.rds -rw-r--r-- root/root 2441 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/hsearch.rds -rw-r--r-- root/root 2072 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/links.rds -rw-r--r-- root/root 458 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/nsInfo.rds -rw-r--r-- root/root 546 2018-12-11 01:34 ./usr/lib/R/library/tcltk/Meta/package.rds -rw-r--r-- root/root 980 2018-12-11 01:34 ./usr/lib/R/library/tcltk/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/R/ -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/tcltk/R/tcltk -rw-r--r-- root/root 95970 2018-12-11 01:34 ./usr/lib/R/library/tcltk/R/tcltk.rdb -rw-r--r-- root/root 3483 2018-12-11 01:34 ./usr/lib/R/library/tcltk/R/tcltk.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/demo/ -rw-r--r-- root/root 5228 2018-12-11 01:34 ./usr/lib/R/library/tcltk/demo/tkcanvas.R -rw-r--r-- root/root 3476 2018-12-11 01:34 ./usr/lib/R/library/tcltk/demo/tkdensity.R -rw-r--r-- root/root 1229 2018-12-11 01:34 ./usr/lib/R/library/tcltk/demo/tkfaq.R -rw-r--r-- root/root 2975 2018-12-11 01:34 ./usr/lib/R/library/tcltk/demo/tkttest.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/ -rw-r--r-- root/root 949 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/Tk-frontend.R -rw-r--r-- root/root 2235 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/console.tcl -rw-r--r-- root/root 39160 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/hierarchy.tcl -rw-r--r-- root/root 1343 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/pkgIndex.tcl -rw-r--r-- root/root 78634 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/progressbar.tcl -rw-r--r-- root/root 17830 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util-dump.tcl -rw-r--r-- root/root 5753 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util-expand.tcl -rw-r--r-- root/root 2115 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util-number.tcl -rw-r--r-- root/root 3600 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util-string.tcl -rw-r--r-- root/root 7157 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util-tk.tcl -rw-r--r-- root/root 23267 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/util.tcl -rw-r--r-- root/root 32703 2018-12-11 01:34 ./usr/lib/R/library/tcltk/exec/widget.tcl drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/ -rw-r--r-- root/root 7436 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/AnIndex -rw-r--r-- root/root 2067 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/aliases.rds -rw-r--r-- root/root 286 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/paths.rds -rw-r--r-- root/root 51228 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/tcltk.rdb -rw-r--r-- root/root 494 2018-12-11 01:34 ./usr/lib/R/library/tcltk/help/tcltk.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/libs/ -rw-r--r-- root/root 39600 2018-12-11 01:34 ./usr/lib/R/library/tcltk/libs/tcltk.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/ -rw-r--r-- root/root 382 2018-12-11 01:34 ./usr/lib/R/library/tools/DESCRIPTION -rw-r--r-- root/root 3742 2018-12-11 01:34 ./usr/lib/R/library/tools/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/ -rw-r--r-- root/root 3224 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/features.rds -rw-r--r-- root/root 3168 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/hsearch.rds -rw-r--r-- root/root 1710 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/links.rds -rw-r--r-- root/root 1874 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/nsInfo.rds -rw-r--r-- root/root 594 2018-12-11 01:34 ./usr/lib/R/library/tools/Meta/package.rds -rw-r--r-- root/root 8205 2018-12-11 01:34 ./usr/lib/R/library/tools/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/R/ -rw-r--r-- root/root 7449 2018-12-11 01:34 ./usr/lib/R/library/tools/R/sysdata.rdb -rw-r--r-- root/root 191 2018-12-11 01:34 ./usr/lib/R/library/tools/R/sysdata.rdx -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/tools/R/tools -rw-r--r-- root/root 1818838 2018-12-11 01:34 ./usr/lib/R/library/tools/R/tools.rdb -rw-r--r-- root/root 11461 2018-12-11 01:34 ./usr/lib/R/library/tools/R/tools.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/help/ -rw-r--r-- root/root 3730 2018-12-11 01:34 ./usr/lib/R/library/tools/help/AnIndex -rw-r--r-- root/root 1474 2018-12-11 01:34 ./usr/lib/R/library/tools/help/aliases.rds -rw-r--r-- root/root 765 2018-12-11 01:34 ./usr/lib/R/library/tools/help/paths.rds -rw-r--r-- root/root 232130 2018-12-11 01:34 ./usr/lib/R/library/tools/help/tools.rdb -rw-r--r-- root/root 1653 2018-12-11 01:34 ./usr/lib/R/library/tools/help/tools.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/html/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/libs/ -rw-r--r-- root/root 93064 2018-12-11 01:34 ./usr/lib/R/library/tools/libs/tools.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ -rw-r--r-- root/root 238 2018-12-11 01:34 ./usr/lib/R/library/translations/DESCRIPTION drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/da/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/ -rw-r--r-- root/root 53685 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3227 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 10085 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 1247 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 1247 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 2626 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2113 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 4480 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1279 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2168 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 5905 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 4964 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 48915 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/R.mo -rw-r--r-- root/root 20034 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 9186 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 583 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 843 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/grid.mo -rw-r--r-- root/root 4281 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/methods.mo -rw-r--r-- root/root 1484 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 552 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/splines.mo -rw-r--r-- root/root 6180 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1272 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 969 2018-12-11 01:34 ./usr/lib/R/library/translations/da/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/de/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/ -rw-r--r-- root/root 53834 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3573 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 13424 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 15442 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 17066 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 68155 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3811 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2612 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 86428 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1294 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2238 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 44798 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 40881 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 163281 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/R.mo -rw-r--r-- root/root 20402 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 16772 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 12038 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2751 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/grid.mo -rw-r--r-- root/root 5251 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/methods.mo -rw-r--r-- root/root 2083 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 560 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/splines.mo -rw-r--r-- root/root 18919 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1310 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3614 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/tools.mo -rw-r--r-- root/root 5352 2018-12-11 01:34 ./usr/lib/R/library/translations/de/LC_MESSAGES/utils.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en/LC_MESSAGES/ -rw-r--r-- root/root 831 2018-12-11 01:34 ./usr/lib/R/library/translations/en/LC_MESSAGES/R.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/ -rw-r--r-- root/root 53797 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3475 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 12779 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 14883 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 16431 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 65181 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3611 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2491 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 83649 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1207 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2149 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 42929 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 39471 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 155793 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/R.mo -rw-r--r-- root/root 15711 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 11573 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2563 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/grid.mo -rw-r--r-- root/root 4943 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/methods.mo -rw-r--r-- root/root 1959 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 509 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/splines.mo -rw-r--r-- root/root 18097 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1217 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3427 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/tools.mo -rw-r--r-- root/root 5127 2018-12-11 01:34 ./usr/lib/R/library/translations/en@quot/LC_MESSAGES/utils.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en_GB/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/en_GB/LC_MESSAGES/ -rw-r--r-- root/root 396 2018-12-11 01:34 ./usr/lib/R/library/translations/en_GB/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 956 2018-12-11 01:34 ./usr/lib/R/library/translations/en_GB/LC_MESSAGES/R.mo -rw-r--r-- root/root 1166 2018-12-11 01:34 ./usr/lib/R/library/translations/en_GB/LC_MESSAGES/grDevices.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/es/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/es/LC_MESSAGES/ -rw-r--r-- root/root 115265 2018-12-11 01:34 ./usr/lib/R/library/translations/es/LC_MESSAGES/R.mo -rw-r--r-- root/root 20799 2018-12-11 01:34 ./usr/lib/R/library/translations/es/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 9207 2018-12-11 01:34 ./usr/lib/R/library/translations/es/LC_MESSAGES/graphics.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/LC_MESSAGES/ -rw-r--r-- root/root 553 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 1656 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 2208 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/LC_MESSAGES/R.mo -rw-r--r-- root/root 26917 2018-12-11 01:34 ./usr/lib/R/library/translations/fa/LC_MESSAGES/RGui.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/ -rw-r--r-- root/root 56369 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3787 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 13692 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 15574 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 17309 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 70340 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3951 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2693 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 87517 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1395 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2390 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 43361 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 40140 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 164302 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/R.mo -rw-r--r-- root/root 21274 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 17092 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 12487 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2844 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/grid.mo -rw-r--r-- root/root 5603 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/methods.mo -rw-r--r-- root/root 2208 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 582 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/splines.mo -rw-r--r-- root/root 18825 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1407 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3818 2018-12-11 01:34 ./usr/lib/R/library/translations/fr/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/it/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/ -rw-r--r-- root/root 19901 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 5783 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 8966 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 53920 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1269 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 916 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 5128 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 85043 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/R.mo -rw-r--r-- root/root 18580 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 4616 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 8747 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 566 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/grid.mo -rw-r--r-- root/root 11776 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/stats.mo -rw-r--r-- root/root 661 2018-12-11 01:34 ./usr/lib/R/library/translations/it/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/ -rw-r--r-- root/root 64468 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 4364 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 15549 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 17888 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 19961 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 77674 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3174 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 99101 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1492 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2733 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 52810 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 47232 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 190790 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/R.mo -rw-r--r-- root/root 23920 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 19889 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 13936 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 3230 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/grid.mo -rw-r--r-- root/root 6020 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/methods.mo -rw-r--r-- root/root 527 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/splines.mo -rw-r--r-- root/root 21515 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1435 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 4153 2018-12-11 01:34 ./usr/lib/R/library/translations/ja/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/ -rw-r--r-- root/root 43665 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 2408 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 13770 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 16151 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 16837 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 58582 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 4261 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 3039 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 81831 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1407 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2530 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 41387 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 42915 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 160357 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/R.mo -rw-r--r-- root/root 23304 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 18059 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 12714 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 3055 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/grid.mo -rw-r--r-- root/root 5773 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/methods.mo -rw-r--r-- root/root 2363 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 561 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/splines.mo -rw-r--r-- root/root 19503 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1489 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3722 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/tools.mo -rw-r--r-- root/root 5663 2018-12-11 01:34 ./usr/lib/R/library/translations/ko/LC_MESSAGES/utils.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/LC_MESSAGES/ -rw-r--r-- root/root 39889 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 125529 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/LC_MESSAGES/R.mo -rw-r--r-- root/root 20215 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 9530 2018-12-11 01:34 ./usr/lib/R/library/translations/nn/LC_MESSAGES/graphics.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/ -rw-r--r-- root/root 60387 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 4009 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 14367 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 16206 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 18066 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 68446 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 4251 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2789 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 92991 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1517 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2476 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 48061 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 43535 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 168695 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/R.mo -rw-r--r-- root/root 20979 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 17327 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 12703 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2975 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/grid.mo -rw-r--r-- root/root 5275 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/methods.mo -rw-r--r-- root/root 2301 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 721 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/splines.mo -rw-r--r-- root/root 19747 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1480 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3886 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/tools.mo -rw-r--r-- root/root 5708 2018-12-11 01:34 ./usr/lib/R/library/translations/pl/LC_MESSAGES/utils.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/ -rw-r--r-- root/root 32403 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3553 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 9668 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 12405 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 5041 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 5106 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 2244 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 49188 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1354 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2325 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 2111 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 1218 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 131859 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/R.mo -rw-r--r-- root/root 20729 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 2529 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 10057 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 957 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/grid.mo -rw-r--r-- root/root 4679 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/methods.mo -rw-r--r-- root/root 634 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/splines.mo -rw-r--r-- root/root 16935 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1370 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 814 2018-12-11 01:34 ./usr/lib/R/library/translations/pt_BR/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/ -rw-r--r-- root/root 54805 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 4936 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 13627 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 15532 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 16692 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 65961 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3908 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2662 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 86604 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1449 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2334 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 44414 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 40653 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 209653 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/R.mo -rw-r--r-- root/root 20225 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 16327 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 15753 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2788 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/grid.mo -rw-r--r-- root/root 5072 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/methods.mo -rw-r--r-- root/root 2134 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 605 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/splines.mo -rw-r--r-- root/root 18617 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1376 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3675 2018-12-11 01:34 ./usr/lib/R/library/translations/ru/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/ -rw-r--r-- root/root 790 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 34017 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1275 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 522 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 941 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 124265 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/R.mo -rw-r--r-- root/root 20684 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 9716 2018-12-11 01:34 ./usr/lib/R/library/translations/tr/LC_MESSAGES/graphics.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/ -rw-r--r-- root/root 47656 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-base.mo -rw-r--r-- root/root 3209 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-compiler.mo -rw-r--r-- root/root 11427 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-grDevices.mo -rw-r--r-- root/root 13590 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-graphics.mo -rw-r--r-- root/root 14655 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-grid.mo -rw-r--r-- root/root 58897 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-methods.mo -rw-r--r-- root/root 3325 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-parallel.mo -rw-r--r-- root/root 2390 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-splines.mo -rw-r--r-- root/root 74985 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-stats.mo -rw-r--r-- root/root 1204 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-stats4.mo -rw-r--r-- root/root 2112 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-tcltk.mo -rw-r--r-- root/root 30817 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-tools.mo -rw-r--r-- root/root 34114 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R-utils.mo -rw-r--r-- root/root 139868 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/R.mo -rw-r--r-- root/root 17418 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 14498 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/grDevices.mo -rw-r--r-- root/root 10701 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/graphics.mo -rw-r--r-- root/root 2362 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/grid.mo -rw-r--r-- root/root 4726 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/methods.mo -rw-r--r-- root/root 1909 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/parallel.mo -rw-r--r-- root/root 501 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/splines.mo -rw-r--r-- root/root 16194 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/stats.mo -rw-r--r-- root/root 1220 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/tcltk.mo -rw-r--r-- root/root 3227 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_CN/LC_MESSAGES/tools.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_TW/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_TW/LC_MESSAGES/ -rw-r--r-- root/root 125530 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_TW/LC_MESSAGES/R.mo -rw-r--r-- root/root 17721 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_TW/LC_MESSAGES/RGui.mo -rw-r--r-- root/root 9112 2018-12-11 01:34 ./usr/lib/R/library/translations/zh_TW/LC_MESSAGES/graphics.mo drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/ -rw-r--r-- root/root 350 2018-12-11 01:34 ./usr/lib/R/library/utils/DESCRIPTION -rw-r--r-- root/root 8060 2018-12-11 01:34 ./usr/lib/R/library/utils/INDEX drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/ -rw-r--r-- root/root 6245 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/Rd.rds -rw-r--r-- root/root 113 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/features.rds -rw-r--r-- root/root 6157 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/hsearch.rds -rw-r--r-- root/root 3218 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/links.rds -rw-r--r-- root/root 2248 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/nsInfo.rds -rw-r--r-- root/root 582 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/package.rds -rw-r--r-- root/root 209 2018-12-11 01:34 ./usr/lib/R/library/utils/Meta/vignette.rds -rw-r--r-- root/root 6947 2018-12-11 01:34 ./usr/lib/R/library/utils/NAMESPACE drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/R/ -rw-r--r-- root/root 14309 2018-12-11 01:34 ./usr/lib/R/library/utils/R/sysdata.rdb -rw-r--r-- root/root 175 2018-12-11 01:34 ./usr/lib/R/library/utils/R/sysdata.rdx -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/lib/R/library/utils/R/utils -rw-r--r-- root/root 903531 2018-12-11 01:34 ./usr/lib/R/library/utils/R/utils.rdb -rw-r--r-- root/root 6912 2018-12-11 01:34 ./usr/lib/R/library/utils/R/utils.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/Sweave/ -rw-r--r-- root/root 1305 2018-12-11 01:34 ./usr/lib/R/library/utils/Sweave/Sweave-test-1.Rnw -rw-r--r-- root/root 725 2018-12-11 01:34 ./usr/lib/R/library/utils/Sweave/example-1.Rnw drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/doc/ -rw-r--r-- root/root 1212 2018-12-11 01:34 ./usr/lib/R/library/utils/doc/Sweave.R -rw-r--r-- root/root 32774 2018-12-11 01:34 ./usr/lib/R/library/utils/doc/Sweave.Rnw -rw-r--r-- root/root 322327 2018-12-11 01:34 ./usr/lib/R/library/utils/doc/Sweave.pdf -rw-r--r-- root/root 1311 2018-12-11 01:34 ./usr/lib/R/library/utils/doc/index.html drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/help/ -rw-r--r-- root/root 7277 2018-12-11 01:34 ./usr/lib/R/library/utils/help/AnIndex -rw-r--r-- root/root 2728 2018-12-11 01:34 ./usr/lib/R/library/utils/help/aliases.rds -rw-r--r-- root/root 1299 2018-12-11 01:34 ./usr/lib/R/library/utils/help/paths.rds -rw-r--r-- root/root 680839 2018-12-11 01:34 ./usr/lib/R/library/utils/help/utils.rdb -rw-r--r-- root/root 3198 2018-12-11 01:34 ./usr/lib/R/library/utils/help/utils.rdx drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/html/ -rw-r--r-- root/root 13586 2018-12-11 01:34 ./usr/lib/R/library/utils/iconvlist drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/libs/ -rw-r--r-- root/root 60120 2018-12-11 01:34 ./usr/lib/R/library/utils/libs/utils.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/misc/ -rw-r--r-- root/root 38 2018-12-11 01:34 ./usr/lib/R/library/utils/misc/exDIF.csv -rw-r--r-- root/root 242 2018-12-11 01:34 ./usr/lib/R/library/utils/misc/exDIF.dif drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/modules/ -rw-r--r-- root/root 176120 2018-12-11 01:34 ./usr/lib/R/modules/R_X11.so -rw-r--r-- root/root 56632 2018-12-11 01:34 ./usr/lib/R/modules/R_de.so -rw-r--r-- root/root 88928 2018-12-11 01:34 ./usr/lib/R/modules/internet.so -rw-r--r-- root/root 55712 2018-12-11 01:34 ./usr/lib/R/modules/lapack.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/site-library/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/libR.so -> R/lib/libR.so drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/pkgconfig/ -rw-r--r-- root/root 274 2018-12-11 01:34 ./usr/lib/pkgconfig/libR.pc drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/ -rw-r--r-- root/root 979 2018-12-11 01:34 ./usr/share/R/doc/AUTHORS -rw-r--r-- root/root 3283 2018-12-11 01:34 ./usr/share/R/doc/BioC_mirrors.csv lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/R/doc/COPYING -> ../../common-licenses/GPL-2 -rw-r--r-- root/root 23202 2018-12-11 01:34 ./usr/share/R/doc/COPYRIGHTS -rw-r--r-- root/root 25113 2018-12-11 01:34 ./usr/share/R/doc/CRAN_mirrors.csv -rw-r--r-- root/root 124953 2018-12-11 01:34 ./usr/share/R/doc/FAQ -rw-r--r-- root/root 2530 2018-12-11 01:34 ./usr/share/R/doc/KEYWORDS -rw-r--r-- root/root 3047 2018-12-11 01:34 ./usr/share/R/doc/KEYWORDS.db -rw-r--r-- root/root 281536 2018-12-11 01:34 ./usr/share/R/doc/NEWS -rw-r--r-- root/root 93568 2018-12-11 01:34 ./usr/share/R/doc/NEWS.0 -rw-r--r-- root/root 294277 2018-12-11 01:34 ./usr/share/R/doc/NEWS.1 -rw-r--r-- root/root 641822 2018-12-11 01:34 ./usr/share/R/doc/NEWS.2 -rw-r--r-- root/root 548598 2018-12-11 01:34 ./usr/share/R/doc/NEWS.pdf -rw-r--r-- root/root 463547 2018-12-11 01:34 ./usr/share/R/doc/NEWS.rds -rw-r--r-- root/root 1253 2018-12-11 01:34 ./usr/share/R/doc/RESOURCES -rw-r--r-- root/root 3532 2018-12-11 01:34 ./usr/share/R/doc/THANKS drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/html/ -rw-r--r-- root/root 356339 2018-12-11 01:34 ./usr/share/R/doc/html/NEWS.2.html -rw-r--r-- root/root 397667 2018-12-11 01:34 ./usr/share/R/doc/html/NEWS.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/share/R/doc/html/R.css -rw-r--r-- root/root 6755 2018-12-11 01:34 ./usr/share/R/doc/html/Rlogo.pdf -rw-r--r-- root/root 2693 2018-12-11 01:34 ./usr/share/R/doc/html/Rlogo.svg -rw-r--r-- root/root 610 2018-12-11 01:34 ./usr/share/R/doc/html/Search.html -rw-r--r-- root/root 7799 2018-12-11 01:34 ./usr/share/R/doc/html/SearchOn.html -rw-r--r-- root/root 1972 2018-12-11 01:34 ./usr/share/R/doc/html/about.html -rw-r--r-- root/root 5430 2018-12-11 01:34 ./usr/share/R/doc/html/favicon.ico -rw-r--r-- root/root 2152 2018-12-11 01:34 ./usr/share/R/doc/html/index.html -rw-r--r-- root/root 1013 2018-12-11 01:34 ./usr/share/R/doc/html/left.jpg -rw-r--r-- root/root 15985 2018-12-11 01:34 ./usr/share/R/doc/html/logo.jpg -rw-r--r-- root/root 425 2018-12-11 01:34 ./usr/share/R/doc/html/packages-head-utf8.html -rw-r--r-- root/root 2946 2018-12-11 01:34 ./usr/share/R/doc/html/packages.html -rw-r--r-- root/root 5111 2018-12-11 01:34 ./usr/share/R/doc/html/resources.html -rw-r--r-- root/root 1022 2018-12-11 01:34 ./usr/share/R/doc/html/right.jpg -rw-r--r-- root/root 1021 2018-12-11 01:34 ./usr/share/R/doc/html/up.jpg drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/manual/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/manual/images/ -rw-r--r-- root/root 5600 2018-12-11 01:34 ./usr/share/R/doc/manual/images/QQ.png -rw-r--r-- root/root 4057 2018-12-11 01:34 ./usr/share/R/doc/manual/images/ecdf.png -rw-r--r-- root/root 2908 2018-12-11 01:34 ./usr/share/R/doc/manual/images/fig11.png -rw-r--r-- root/root 3008 2018-12-11 01:34 ./usr/share/R/doc/manual/images/fig12.png -rw-r--r-- root/root 6876 2018-12-11 01:34 ./usr/share/R/doc/manual/images/hist.png -rw-r--r-- root/root 1772 2018-12-11 01:34 ./usr/share/R/doc/manual/images/ice.png drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/include/ -rw-r--r-- root/root 3413 2018-12-11 01:34 ./usr/share/R/include/R.h drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/include/R_ext/ -rw-r--r-- root/root 4748 2018-12-11 01:34 ./usr/share/R/include/R_ext/Altrep.h -rw-r--r-- root/root 5852 2018-12-11 01:34 ./usr/share/R/include/R_ext/Applic.h -rw-r--r-- root/root 2938 2018-12-11 01:34 ./usr/share/R/include/R_ext/Arith.h -rw-r--r-- root/root 17660 2018-12-11 01:34 ./usr/share/R/include/R_ext/BLAS.h -rw-r--r-- root/root 1307 2018-12-11 01:34 ./usr/share/R/include/R_ext/Boolean.h -rw-r--r-- root/root 4208 2018-12-11 01:34 ./usr/share/R/include/R_ext/Callbacks.h -rw-r--r-- root/root 1262 2018-12-11 01:34 ./usr/share/R/include/R_ext/Complex.h -rw-r--r-- root/root 3408 2018-12-11 01:34 ./usr/share/R/include/R_ext/Connections.h -rw-r--r-- root/root 1752 2018-12-11 01:34 ./usr/share/R/include/R_ext/Constants.h -rw-r--r-- root/root 1591 2018-12-11 01:34 ./usr/share/R/include/R_ext/Error.h -rw-r--r-- root/root 1082 2018-12-11 01:34 ./usr/share/R/include/R_ext/GetX11Image.h -rw-r--r-- root/root 30315 2018-12-11 01:34 ./usr/share/R/include/R_ext/GraphicsDevice.h -rw-r--r-- root/root 19329 2018-12-11 01:34 ./usr/share/R/include/R_ext/GraphicsEngine.h -rw-r--r-- root/root 6795 2018-12-11 01:34 ./usr/share/R/include/R_ext/Itermacros.h -rw-r--r-- root/root 124105 2018-12-11 01:34 ./usr/share/R/include/R_ext/Lapack.h -rw-r--r-- root/root 4603 2018-12-11 01:34 ./usr/share/R/include/R_ext/Linpack.h -rw-r--r-- root/root 1577 2018-12-11 01:34 ./usr/share/R/include/R_ext/MathThreads.h -rw-r--r-- root/root 1717 2018-12-11 01:34 ./usr/share/R/include/R_ext/Memory.h -rw-r--r-- root/root 1281 2018-12-11 01:34 ./usr/share/R/include/R_ext/Parse.h -rw-r--r-- root/root 1706 2018-12-11 01:34 ./usr/share/R/include/R_ext/Print.h -rw-r--r-- root/root 2820 2018-12-11 01:34 ./usr/share/R/include/R_ext/PrtUtil.h -rw-r--r-- root/root 10981 2018-12-11 01:34 ./usr/share/R/include/R_ext/QuartzDevice.h -rw-r--r-- root/root 2508 2018-12-11 01:34 ./usr/share/R/include/R_ext/R-ftp-http.h -rw-r--r-- root/root 3553 2018-12-11 01:34 ./usr/share/R/include/R_ext/RS.h -rw-r--r-- root/root 2956 2018-12-11 01:34 ./usr/share/R/include/R_ext/RStartup.h -rw-r--r-- root/root 2010 2018-12-11 01:34 ./usr/share/R/include/R_ext/Rallocators.h -rw-r--r-- root/root 1972 2018-12-11 01:34 ./usr/share/R/include/R_ext/Random.h -rw-r--r-- root/root 3522 2018-12-11 01:34 ./usr/share/R/include/R_ext/Rdynload.h -rw-r--r-- root/root 1548 2018-12-11 01:34 ./usr/share/R/include/R_ext/Riconv.h -rw-r--r-- root/root 4103 2018-12-11 01:34 ./usr/share/R/include/R_ext/Utils.h -rw-r--r-- root/root 1470 2018-12-11 01:34 ./usr/share/R/include/R_ext/Visibility.h -rw-r--r-- root/root 3353 2018-12-11 01:34 ./usr/share/R/include/R_ext/eventloop.h -rw-r--r-- root/root 1769 2018-12-11 01:34 ./usr/share/R/include/R_ext/libextern.h -rw-r--r-- root/root 2819 2018-12-11 01:34 ./usr/share/R/include/R_ext/stats_package.h -rw-r--r-- root/root 3108 2018-12-11 01:34 ./usr/share/R/include/R_ext/stats_stubs.h -rw-r--r-- root/root 669 2018-12-11 01:34 ./usr/share/R/include/Rconfig.h -rw-r--r-- root/root 6758 2018-12-11 01:34 ./usr/share/R/include/Rdefines.h -rw-r--r-- root/root 2075 2018-12-11 01:34 ./usr/share/R/include/Rembedded.h -rw-r--r-- root/root 5456 2018-12-11 01:34 ./usr/share/R/include/Rinterface.h -rw-r--r-- root/root 55575 2018-12-11 01:34 ./usr/share/R/include/Rinternals.h -rw-r--r-- root/root 17416 2018-12-11 01:34 ./usr/share/R/include/Rmath.h -rw-r--r-- root/root 503 2018-12-11 01:34 ./usr/share/R/include/Rversion.h -rw-r--r-- root/root 2593 2018-12-11 01:34 ./usr/share/R/include/S.h drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/R/ -rw-r--r-- root/root 3033 2018-12-11 01:34 ./usr/share/R/share/R/REMOVE.R -rw-r--r-- root/root 283 2018-12-11 01:34 ./usr/share/R/share/R/examples-footer.R -rw-r--r-- root/root 3362 2018-12-11 01:34 ./usr/share/R/share/R/examples-header.R -rw-r--r-- root/root 1056 2018-12-11 01:34 ./usr/share/R/share/R/nspackloader.R -rw-r--r-- root/root 131 2018-12-11 01:34 ./usr/share/R/share/R/tests-startup.R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/Rd/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/Rd/macros/ -rw-r--r-- root/root 2074 2018-12-11 01:34 ./usr/share/R/share/Rd/macros/system.Rd drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/dictionaries/ -rw-r--r-- root/root 2614 2018-12-11 01:34 ./usr/share/R/share/dictionaries/en_stats.rds drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/encodings/ -rw-r--r-- root/root 74056 2018-12-11 01:34 ./usr/share/R/share/encodings/Adobe-glyphlist -rw-r--r-- root/root 53369 2018-12-11 01:34 ./usr/share/R/share/encodings/character-sets drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/java/ -rw-r--r-- root/root 87 2018-12-11 01:34 ./usr/share/R/share/java/README -rw-r--r-- root/root 1356 2018-12-11 01:34 ./usr/share/R/share/java/getsp.class drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/licenses/ -rw-r--r-- root/root 34525 2018-12-11 01:34 ./usr/share/R/share/licenses/AGPL-3 -rw-r--r-- root/root 9073 2018-12-11 01:34 ./usr/share/R/share/licenses/Artistic-2.0 -rw-r--r-- root/root 1630 2018-12-11 01:34 ./usr/share/R/share/licenses/BSD_2_clause -rw-r--r-- root/root 1844 2018-12-11 01:34 ./usr/share/R/share/licenses/BSD_3_clause -rw-r--r-- root/root 18011 2018-12-11 01:34 ./usr/share/R/share/licenses/GPL-2 -rw-r--r-- root/root 35147 2018-12-11 01:34 ./usr/share/R/share/licenses/GPL-3 -rw-r--r-- root/root 25292 2018-12-11 01:34 ./usr/share/R/share/licenses/LGPL-2 -rw-r--r-- root/root 26432 2018-12-11 01:34 ./usr/share/R/share/licenses/LGPL-2.1 -rw-r--r-- root/root 7639 2018-12-11 01:34 ./usr/share/R/share/licenses/LGPL-3 -rw-r--r-- root/root 1380 2018-12-11 01:34 ./usr/share/R/share/licenses/MIT -rw-r--r-- root/root 9962 2018-12-11 01:34 ./usr/share/R/share/licenses/license.db drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/make/ -rw-r--r-- root/root 6647 2018-12-11 01:34 ./usr/share/R/share/make/basepkg.mk -rw-r--r-- root/root 482 2018-12-11 01:34 ./usr/share/R/share/make/check_vars_ini.mk -rw-r--r-- root/root 812 2018-12-11 01:34 ./usr/share/R/share/make/check_vars_out.mk -rw-r--r-- root/root 86 2018-12-11 01:34 ./usr/share/R/share/make/clean.mk -rw-r--r-- root/root 92 2018-12-11 01:34 ./usr/share/R/share/make/config.mk -rw-r--r-- root/root 785 2018-12-11 01:34 ./usr/share/R/share/make/lazycomp.mk -rw-r--r-- root/root 471 2018-12-11 01:34 ./usr/share/R/share/make/shlib.mk -rw-r--r-- root/root 918 2018-12-11 01:34 ./usr/share/R/share/make/vars.mk -rw-r--r-- root/root 1142 2018-12-11 01:34 ./usr/share/R/share/make/winshlib.mk drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/sh/ -rwxr-xr-x root/root 27 2018-12-11 01:34 ./usr/share/R/share/sh/echo.sh drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/bib/ -rw-r--r-- root/root 155682 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/bib/RJournal.bib -rw-r--r-- root/root 72374 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/bib/Rnews.bib drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/bst/ -rw-r--r-- root/root 32350 2018-12-11 01:34 ./usr/share/R/share/texmf/bibtex/bst/jss.bst drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/ -rw-r--r-- root/root 14828 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/Rd.sty -rw-r--r-- root/root 1635 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/Sweave.sty -rw-r--r-- root/root 14804 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/jss.cls -rw-r--r-- root/root 644 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/omsaer.fd -rw-r--r-- root/root 607 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/omsaett.fd -rw-r--r-- root/root 607 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/omscmtt.fd -rw-r--r-- root/root 534 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/ts1aer.fd -rw-r--r-- root/root 299 2018-12-11 01:34 ./usr/share/R/share/texmf/tex/latex/ts1aett.fd drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/applications/ -rw-r--r-- root/root 213 2018-12-11 01:34 ./usr/share/applications/R.desktop drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/bash-completion/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/bash-completion/completions/ -rw-r--r-- root/root 13596 2018-04-16 22:27 ./usr/share/bash-completion/completions/R drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core/ -rw-r--r-- root/root 35933 2018-09-25 08:43 ./usr/share/doc/r-base-core/NEWS.0.gz -rw-r--r-- root/root 108753 2018-09-25 08:43 ./usr/share/doc/r-base-core/NEWS.1.gz -rw-r--r-- root/root 96630 2018-09-25 08:43 ./usr/share/doc/r-base-core/NEWS.2.Rd.gz -rw-r--r-- root/root 229657 2018-09-25 08:43 ./usr/share/doc/r-base-core/NEWS.2.gz -rw-r--r-- root/root 105878 2018-12-10 23:15 ./usr/share/doc/r-base-core/NEWS.Rd.gz lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core/NEWS.gz -> changelog.gz -rw-r--r-- root/root 540640 2018-12-11 01:34 ./usr/share/doc/r-base-core/NEWS.pdf.gz -rw-r--r-- root/root 453147 2018-12-11 01:34 ./usr/share/doc/r-base-core/NEWS.rds.gz -rw-r--r-- root/root 2739 2018-04-16 22:27 ./usr/share/doc/r-base-core/README.Atlas.gz -rw-r--r-- root/root 2107 2018-09-25 08:47 ./usr/share/doc/r-base-core/README.gz -rw-r--r-- root/root 3026 2018-04-16 22:27 ./usr/share/doc/r-base-core/README.mathlib -rw-r--r-- root/root 943 2018-12-11 01:34 ./usr/share/doc/r-base-core/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-base-core/copyright lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core/doc -> ../../R/doc lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-core/library -> ../../../lib/R/library drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/icons/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/icons/hicolor/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/icons/hicolor/48x48/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/icons/hicolor/48x48/apps/ -rw-r--r-- root/root 4111 2018-12-11 01:34 ./usr/share/icons/hicolor/48x48/apps/rlogo_icon.png drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/info/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 7851 2018-04-16 22:27 ./usr/share/lintian/overrides/r-base-core drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/man/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/man/man1/ -rw-r--r-- root/root 2584 2018-12-11 01:34 ./usr/share/man/man1/R.1.gz -rw-r--r-- root/root 659 2018-12-11 01:34 ./usr/share/man/man1/Rscript.1.gz drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/texmf/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/texmf/tex/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/texmf/tex/latex/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/texmf/tex/latex/R -> ../../../R/share/texmf r-base-dev_3.5.1.20181215-1_all.deb ----------------------------------- new debian package, version 2.0. size 4524 bytes: control archive=1668 bytes. 2259 bytes, 40 lines control 63 bytes, 1 lines md5sums 425 bytes, 26 lines * preinst #!/bin/sh Package: r-base-dev Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 15 Depends: r-base-core (>= 3.5.1.20181215-1), build-essential, gcc, g++, gfortran, libblas-dev | libatlas-base-dev, liblapack-dev | libatlas-base-dev, libncurses5-dev, libreadline-dev, libjpeg-dev, libpcre3-dev, libpng-dev, zlib1g-dev, libbz2-dev, liblzma-dev, libicu-dev, xauth, pkg-config Suggests: texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, texinfo Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R installation of auxiliary GNU R packages R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package ensures that other Debian packages needed for installation of some auxiliary R packages are installed. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/debian/ -rwxr-xr-x root/root 6083 2018-04-16 22:27 ./usr/share/R/debian/r-cran.mk drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-dev -> r-base-core r-base-html_3.5.1.20181215-1_all.deb ------------------------------------ new debian package, version 2.0. size 54968 bytes: control archive=1864 bytes. 2020 bytes, 43 lines control 2138 bytes, 29 lines md5sums Package: r-base-html Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 551 Depends: r-base-core Suggests: r-doc-html, mozilla | www-browser Replaces: r-base (<= 1.4.1-1), r-recommended (<< 1.9.0) Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R html docs for statistical computing system functions R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides html documentation suitable for browsing with a web-browser for the libraries included in the r-base package. It is not a required package as the same documentation is already included for on-line browsing. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/base/html/ -rw-r--r-- root/root 144607 2018-12-11 01:34 ./usr/lib/R/library/base/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/base/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/compiler/html/ -rw-r--r-- root/root 1859 2018-12-11 01:34 ./usr/lib/R/library/compiler/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/compiler/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/datasets/html/ -rw-r--r-- root/root 15962 2018-12-11 01:34 ./usr/lib/R/library/datasets/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/datasets/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grDevices/html/ -rw-r--r-- root/root 20468 2018-12-11 01:34 ./usr/lib/R/library/grDevices/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/grDevices/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/graphics/html/ -rw-r--r-- root/root 12258 2018-12-11 01:34 ./usr/lib/R/library/graphics/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/graphics/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/grid/html/ -rw-r--r-- root/root 25802 2018-12-11 01:34 ./usr/lib/R/library/grid/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/grid/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/methods/html/ -rw-r--r-- root/root 41310 2018-12-11 01:34 ./usr/lib/R/library/methods/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/methods/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/parallel/html/ -rw-r--r-- root/root 6931 2018-12-11 01:34 ./usr/lib/R/library/parallel/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/parallel/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/splines/html/ -rw-r--r-- root/root 3701 2018-12-11 01:34 ./usr/lib/R/library/splines/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/splines/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats/html/ -rw-r--r-- root/root 72409 2018-12-11 01:34 ./usr/lib/R/library/stats/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/stats/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/stats4/html/ -rw-r--r-- root/root 4515 2018-12-11 01:34 ./usr/lib/R/library/stats4/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/stats4/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tcltk/html/ -rw-r--r-- root/root 34725 2018-12-11 01:34 ./usr/lib/R/library/tcltk/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/tcltk/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/tools/html/ -rw-r--r-- root/root 20473 2018-12-11 01:34 ./usr/lib/R/library/tools/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/tools/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/utils/html/ -rw-r--r-- root/root 33729 2018-12-11 01:34 ./usr/lib/R/library/utils/html/00Index.html -rw-r--r-- root/root 1335 2018-12-11 01:34 ./usr/lib/R/library/utils/html/R.css drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-html/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base-html/changelog.Debian.gz -> ../r-base-core/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-base-html/copyright r-base_3.5.1.20181215-1_all.deb ------------------------------- new debian package, version 2.0. size 9312 bytes: control archive=1472 bytes. 2134 bytes, 43 lines control 134 bytes, 2 lines md5sums Package: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 3.5.1.20181215-1), r-recommended (= 3.5.1.20181215-1) Recommends: r-base-html, r-doc-html Suggests: ess, r-doc-info | r-doc-pdf Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R statistical computation and graphics system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package is a metapackage which eases the transition from the pre-1.5.0 package setup with its larger r-base package. Once installed, it can be safely removed and apt-get will automatically upgrade its components during future upgrades. Providing this package gives a way to users to then only install r-base-core if they so desire. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base/ -rw-r--r-- root/root 463 2018-04-16 22:27 ./usr/share/doc/r-base/README.Debian lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-base/changelog.Debian.gz -> ../r-base-core/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-base/copyright r-doc-html_3.5.1.20181215-1_all.deb ----------------------------------- new debian package, version 2.0. size 530784 bytes: control archive=2072 bytes. 1861 bytes, 40 lines control 1063 bytes, 16 lines md5sums 635 bytes, 32 lines * preinst #!/bin/sh Package: r-doc-html Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 3011 Suggests: r-base-core, mozilla | www-browser Replaces: r-base (<= 1.4.1-1) Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R html manuals for statistical computing system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the R manuals in html format. The sibling packages r-doc-pdf and r-doc-info provides the same manuals. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/manual/ -rw-r--r-- root/root 242078 2018-12-11 01:34 ./usr/share/R/doc/manual/R-FAQ.html -rw-r--r-- root/root 411786 2018-12-11 01:34 ./usr/share/R/doc/manual/R-admin.html -rw-r--r-- root/root 186936 2018-12-11 01:34 ./usr/share/R/doc/manual/R-data.html -rw-r--r-- root/root 954714 2018-12-11 01:34 ./usr/share/R/doc/manual/R-exts.html -rw-r--r-- root/root 509094 2018-12-11 01:34 ./usr/share/R/doc/manual/R-intro.html -rw-r--r-- root/root 348059 2018-12-11 01:34 ./usr/share/R/doc/manual/R-ints.html -rw-r--r-- root/root 345268 2018-12-11 01:34 ./usr/share/R/doc/manual/R-lang.html drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc-base/ -rw-r--r-- root/root 296 2018-04-16 22:27 ./usr/share/doc-base/r-admin -rw-r--r-- root/root 283 2018-04-16 22:27 ./usr/share/doc-base/r-data -rw-r--r-- root/root 398 2018-04-16 22:27 ./usr/share/doc-base/r-extensions -rw-r--r-- root/root 313 2018-04-16 22:27 ./usr/share/doc-base/r-faq -rw-r--r-- root/root 726 2018-04-16 22:27 ./usr/share/doc-base/r-intro -rw-r--r-- root/root 336 2018-04-16 22:27 ./usr/share/doc-base/r-ints -rw-r--r-- root/root 371 2018-04-16 22:27 ./usr/share/doc-base/r-language drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/ -rw-r--r-- root/root 944 2018-12-11 01:34 ./usr/share/doc/r-doc-html/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-doc-html/copyright drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-FAQ.html -> ../../../R/doc/manual/R-FAQ.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-admin.html -> ../../../R/doc/manual/R-admin.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-data.html -> ../../../R/doc/manual/R-data.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-exts.html -> ../../../R/doc/manual/R-exts.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-intro.html -> ../../../R/doc/manual/R-intro.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-ints.html -> ../../../R/doc/manual/R-ints.html lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-html/manual/R-lang.html -> ../../../R/doc/manual/R-lang.html r-doc-info_3.5.1.20181215-1_all.deb ----------------------------------- new debian package, version 2.0. size 592968 bytes: control archive=1660 bytes. 1904 bytes, 41 lines control 795 bytes, 12 lines md5sums Package: r-doc-info Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 630 Depends: dpkg (>= 1.15.4) | install-info Suggests: r-base-core, info (>= 3.12) | info-browser Replaces: r-base (<= 1.4.1-1) Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R info manuals statistical computing system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the R manuals in info format. The sibling packages r-doc-html and r-doc-pdf provide the same manuals. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-info/ -rw-r--r-- root/root 944 2018-12-11 01:34 ./usr/share/doc/r-doc-info/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-doc-info/copyright drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/info/ -rw-r--r-- root/root 48055 2018-12-11 01:34 ./usr/share/info/R-FAQ.info.gz -rw-r--r-- root/root 81210 2018-12-11 01:34 ./usr/share/info/R-admin.info.gz -rw-r--r-- root/root 32285 2018-12-11 01:34 ./usr/share/info/R-data.info.gz -rw-r--r-- root/root 100491 2018-12-11 01:34 ./usr/share/info/R-exts.info-1.gz -rw-r--r-- root/root 95920 2018-12-11 01:34 ./usr/share/info/R-exts.info-2.gz -rw-r--r-- root/root 2224 2018-12-11 01:34 ./usr/share/info/R-exts.info-3.gz -rw-r--r-- root/root 4279 2018-12-11 01:34 ./usr/share/info/R-exts.info.gz -rw-r--r-- root/root 89481 2018-12-11 01:34 ./usr/share/info/R-intro.info.gz -rw-r--r-- root/root 69195 2018-12-11 01:34 ./usr/share/info/R-ints.info.gz -rw-r--r-- root/root 54293 2018-12-11 01:34 ./usr/share/info/R-lang.info.gz r-doc-pdf_3.5.1.20181215-1_all.deb ---------------------------------- new debian package, version 2.0. size 9337472 bytes: control archive=1824 bytes. 1831 bytes, 39 lines control 763 bytes, 11 lines md5sums 422 bytes, 26 lines * preinst #!/bin/sh Package: r-doc-pdf Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 15549 Suggests: r-base-core, xdg-utils | pdf-viewer Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R pdf manuals for statistical computing system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the R manuals in pdf format. The sibling packages r-doc-html and r-doc-info provides the same manuals. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/R/doc/manual/ -rw-r--r-- root/root 382058 2018-12-11 01:34 ./usr/share/R/doc/manual/R-FAQ.pdf -rw-r--r-- root/root 529202 2018-12-11 01:34 ./usr/share/R/doc/manual/R-admin.pdf -rw-r--r-- root/root 312484 2018-12-11 01:34 ./usr/share/R/doc/manual/R-data.pdf -rw-r--r-- root/root 964298 2018-12-11 01:34 ./usr/share/R/doc/manual/R-exts.pdf -rw-r--r-- root/root 625753 2018-12-11 01:34 ./usr/share/R/doc/manual/R-intro.pdf -rw-r--r-- root/root 446914 2018-12-11 01:34 ./usr/share/R/doc/manual/R-ints.pdf -rw-r--r-- root/root 378954 2018-12-11 01:34 ./usr/share/R/doc/manual/R-lang.pdf -rw-r--r-- root/root 6101271 2018-12-11 01:34 ./usr/share/R/doc/manual/fullrefman.pdf -rw-r--r-- root/root 6101271 2018-12-11 01:34 ./usr/share/R/doc/manual/refman.pdf drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/ -rw-r--r-- root/root 943 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-doc-pdf/copyright drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-FAQ.pdf -> ../../../R/doc/manual/R-FAQ.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-admin.pdf -> ../../../R/doc/manual/R-admin.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-data.pdf -> ../../../R/doc/manual/R-data.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-exts.pdf -> ../../../R/doc/manual/R-exts.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-intro.pdf -> ../../../R/doc/manual/R-intro.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-ints.pdf -> ../../../R/doc/manual/R-ints.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/R-lang.pdf -> ../../../R/doc/manual/R-lang.pdf lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-doc-pdf/manual/refman.pdf -> ../../../R/doc/manual/refman.pdf r-mathlib_3.5.1.20181215-1_amd64.deb ------------------------------------ new debian package, version 2.0. size 1731828 bytes: control archive=2092 bytes. 1866 bytes, 40 lines control 1148 bytes, 17 lines md5sums 369 bytes, 27 lines * postinst #!/bin/sh 21 bytes, 1 lines shlibs 74 bytes, 2 lines triggers Package: r-mathlib Source: r-base Version: 3.5.1.20181215-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 2500 Depends: libc6 (>= 2.23) Recommends: r-base-core (= 3.5.1.20181215-1), r-base-dev (= 3.5.1.20181215-1) Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R standalone mathematics library R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the libRmath shared and static libraries which can be called from standalone C or C++ code. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/include/ -rw-r--r-- root/root 17416 2018-12-11 01:34 ./usr/include/Rmath.h drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/ -rw-r--r-- root/root 569058 2018-12-11 01:34 ./usr/lib/libRmath.a lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/libRmath.so -> libRmath.so.1 lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/lib/libRmath.so.1 -> libRmath.so.1.0.0 -rw-r--r-- root/root 215280 2018-12-11 01:34 ./usr/lib/libRmath.so.1.0.0 drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/pkgconfig/ -rw-r--r-- root/root 173 2018-12-11 01:34 ./usr/lib/pkgconfig/libRmath.pc drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-mathlib/ -rw-r--r-- root/root 35933 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.0.gz -rw-r--r-- root/root 108753 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.1.gz -rw-r--r-- root/root 96630 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.2.Rd.gz -rw-r--r-- root/root 229657 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.2.gz -rw-r--r-- root/root 105878 2018-12-10 23:15 ./usr/share/doc/r-mathlib/NEWS.Rd.gz lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-mathlib/NEWS.gz -> changelog.gz -rw-r--r-- root/root 540640 2018-12-11 01:34 ./usr/share/doc/r-mathlib/NEWS.pdf.gz -rw-r--r-- root/root 453147 2018-12-11 01:34 ./usr/share/doc/r-mathlib/NEWS.rds.gz -rw-r--r-- root/root 2107 2018-09-25 08:47 ./usr/share/doc/r-mathlib/README.gz -rw-r--r-- root/root 3026 2018-04-16 22:27 ./usr/share/doc/r-mathlib/README.mathlib -rw-r--r-- root/root 944 2018-12-11 01:34 ./usr/share/doc/r-mathlib/changelog.Debian.gz -rw-r--r-- root/root 20761 2018-04-16 22:27 ./usr/share/doc/r-mathlib/copyright drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/r-mathlib/examples/ -rw-r--r-- root/root 1371 2018-09-25 08:46 ./usr/share/doc/r-mathlib/examples/test.c drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 364 2018-04-16 22:27 ./usr/share/lintian/overrides/r-mathlib r-recommended_3.5.1.20181215-1_all.deb -------------------------------------- new debian package, version 2.0. size 2820 bytes: control archive=2172 bytes. 3305 bytes, 57 lines control 76 bytes, 1 lines md5sums 434 bytes, 26 lines * preinst #!/bin/sh Package: r-recommended Source: r-base Version: 3.5.1.20181215-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Dirk Eddelbuettel Installed-Size: 13 Depends: r-base-core (>= 3.5.1.20181215-1), r-cran-boot (>= 1.2.19), r-cran-cluster (>= 1.9.6-2), r-cran-foreign (>= 0.7-2), r-cran-kernsmooth (>= 2.2.14), r-cran-lattice (>= 0.10.11), r-cran-mgcv (>= 1.1.5), r-cran-nlme (>= 3.1.52), r-cran-rpart (>= 3.1.20), r-cran-survival (>= 2.13.2-1), r-cran-mass, r-cran-class, r-cran-nnet, r-cran-spatial, r-cran-codetools, r-cran-matrix Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R collection of recommended packages [metapackage] R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This Debian package is now a metapackage that depends on a set of packages that are recommended by the upstream R core team as part of a complete R distribution, and distributed along with the source of R itself, as well as directly via the CRAN network of mirrors. This set comprises the following packages (listed in their upstream names): - KernSmooth: Functions for kernel smoothing for Wand & Jones (1995) - Matrix: Classes and methods for dense and sparse matrices and operations on them using Lapack and SuiteSparse - MASS, class, nnet and spatial: packages from Venables and Ripley, `Modern Applied Statistics with S' (4th edition). - boot: Bootstrap R (S-Plus) Functions from the book "Bootstrap Methods and Their Applications" by A.C. Davison and D.V. Hinkley (1997). - cluster: Functions for clustering (by Rousseeuw et al.) - codetools: Code analysis tools for R - foreign: Read data stored by Minitab, S, SAS, SPSS, Stata, ... - lattice: Implementation of Trellis (R) graphics - mgcv: Multiple smoothing parameter estimation and GAMs by GCV - nlme: Linear and nonlinear mixed effects models - rpart: Recursive partitioning and regression trees - survival: Survival analysis, including penalised likelihood. drwxr-xr-x root/root 0 2018-12-11 01:34 ./ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/lib/R/library/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-12-11 01:34 ./usr/share/doc/r-recommended -> r-base-core drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-12-11 01:34 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 542 2018-04-16 22:27 ./usr/share/lintian/overrides/r-recommended +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 397400 Build-Time: 858 Distribution: disco-proposed Host Architecture: amd64 Install-Time: 235 Job: r-base_3.5.1.20181215-1.dsc Machine Architecture: amd64 Package: r-base Package-Time: 1096 Source-Version: 3.5.1.20181215-1 Space: 397400 Status: successful Version: 3.5.1.20181215-1 -------------------------------------------------------------------------------- Finished at 20181215-2329 Build needed 00:18:16, 397400k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15784596 Scanning for processes to kill in build PACKAGEBUILD-15784596