Trouble when compiling with g++-9 or g++-7

Asked by Sacha Duverger on 2020-10-28

Hello,

I recently upgraded g++ to 9.3.0 and tried to compile YADE from scratch using the latest version (427f64cbe), but it failed. See [1] for the outputs of the cmake and make commands (I am using Ubuntu 18.04 ).
I tried using g++ 7.5.0 by specifying “-DCMAKE_CXX_COMPILER=g++-7” in the cmake command, this time it compiled but YADE crashes as soon as it starts. See [2] for the outputs of cmake and make commands, and [3] for the output I get when I try to launch YADE.
I used gdb to investigate (see [4]) but I don’t really understand the output. It looks like the problem originates from the library libstdc++.so.6.
Should I try to use another version of gcc ?

Thank you

####################################################################################################################################################################################
[1] : Running cmake and make with g++-9

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Warning: RealHP<N> higher precision types will use slow boost cpp_bin_float, consider passing cmake option ENABLE_MPFR=ON to fix this.
-- Enabling RealHP<N>, double, quadruple and more precisions are available: RealHP<N> for N ∈ {1,2,3,4,8,10,20}. See file lib/high-precision/RealHPConfig.hpp
-- python-mpmath found, version: 1.0.0
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:675 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:693 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog RealHP mpmath PrecisionDouble Odeint VTK OpenMP GTS GUI-Qt5 CGAL FEMLIKE GL2PS PotentialParticles
-- Disabled features: MPFR PFVFLOW PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
-- Optimized build
-- C++ standard version: 17
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make output

Scanning dependencies of target _GLViewer_autogen
[ 0%] Automatic MOC for target _GLViewer
[ 0%] Built target _GLViewer_autogen
Scanning dependencies of target _GLViewer
[ 1%] Building CXX object gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/stdlib.h:36,
                 from /usr/include/python3.6m/Python.h:34,
                 from /usr/include/boost/python/detail/wrap_python.hpp:151,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:14,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:61: error: 'CGAL::cpp98' has not been declared
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:68: error: expected '{' before 'unary_function'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:71:30: error: 'CGAL::cpp98' has not been declared
   71 | class Square : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:71:37: error: expected '{' before 'unary_function'
   71 | class Square : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:71:37: error: expected ';' at end of member declaration
   71 | class Square : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:71:51: error: expected unqualified-id before '<' token
   71 | class Square : public CGAL::cpp98::unary_function<Type, Type> {
      | ^
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:76:28: error: 'CGAL::cpp98' has not been declared
   76 | class Sqrt : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:76:35: error: expected '{' before 'unary_function'
   76 | class Sqrt : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:76:35: error: expected ';' at end of member declaration
   76 | class Sqrt : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:76:35: error: redeclaration of 'int CGAL::RealHP_Algebraic_structure_traits<levelHP>::unary_function'
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:71:37: note: previous declaration 'int CGAL::RealHP_Algebraic_structure_traits<levelHP>::unary_function'
   71 | class Square : public CGAL::cpp98::unary_function<Type, Type> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:76:49: error: expected unqualified-id before '<' token
   76 | class Sqrt : public CGAL::cpp98::unary_function<Type, Type> {
      | ^
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:86:32: error: 'CGAL::cpp98' has not been declared
   86 | class Kth_root : public CGAL::cpp98::binary_function<int, Type, Type> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:86:39: error: expected '{' before 'binary_function'
   86 | class Kth_root : public CGAL::cpp98::binary_function<int, Type, Type> {
      | ^~~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:86:39: error: expected ';' at end of member declaration
   86 | class Kth_root : public CGAL::cpp98::binary_function<int, Type, Type> {
      | ^~~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:86:54: error: expected unqualified-id before '<' token
   86 | class Kth_root : public CGAL::cpp98::binary_function<int, Type, Type> {
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:35: error: 'CGAL::cpp98' has not been declared
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:42: error: expected '{' before 'unary_function'
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:42: error: expected ';' at end of member declaration
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:56: error: expected unqualified-id before '<' token
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:114:27: error: 'CGAL::cpp98' has not been declared
  114 | class Sgn : public CGAL::cpp98::unary_function<Type, CGAL::Sign> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:114:34: error: expected '{' before 'unary_function'
  114 | class Sgn : public CGAL::cpp98::unary_function<Type, CGAL::Sign> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:114:34: error: expected ';' at end of member declaration
  114 | class Sgn : public CGAL::cpp98::unary_function<Type, CGAL::Sign> {
      | ^~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:114:34: error: redeclaration of 'int CGAL::RealHP_embeddable_traits<levelHP>::unary_function'
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:42: note: previous declaration 'int CGAL::RealHP_embeddable_traits<levelHP>::unary_function'
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:114:48: error: expected unqualified-id before '<' token
  114 | class Sgn : public CGAL::cpp98::unary_function<Type, CGAL::Sign> {
      | ^
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:123:33: error: 'CGAL::cpp98' has not been declared
  123 | class Is_finite : public CGAL::cpp98::unary_function<Type, bool> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:123:40: error: expected '{' before 'unary_function'
  123 | class Is_finite : public CGAL::cpp98::unary_function<Type, bool> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:123:40: error: expected ';' at end of member declaration
  123 | class Is_finite : public CGAL::cpp98::unary_function<Type, bool> {
      | ^~~~~~~~~~~~~~
      | ;
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:123:40: error: redeclaration of 'int CGAL::RealHP_embeddable_traits<levelHP>::unary_function'
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:102:42: note: previous declaration 'int CGAL::RealHP_embeddable_traits<levelHP>::unary_function'
  102 | class To_interval : public CGAL::cpp98::unary_function<Type, std::pair<double, double>> {
      | ^~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:123:54: error: expected unqualified-id before '<' token
  123 | class Is_finite : public CGAL::cpp98::unary_function<Type, bool> {
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:153:24: error: 'CGAL::cpp98' has not been declared
  153 | : public CGAL::cpp98::unary_function<::yade::Real, NT_converter<::yade::Real, __gmp_expr<GMP1, GMP2>>> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:153:31: error: expected '{' before 'unary_function'
  153 | : public CGAL::cpp98::unary_function<::yade::Real, NT_converter<::yade::Real, __gmp_expr<GMP1, GMP2>>> {
      | ^~~~~~~~~~~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:165:24: error: 'CGAL::cpp98' has not been declared
  165 | : public CGAL::cpp98::unary_function<::yade::Real, NT_converter<::yade::Real, boost::multiprecision::mpq_rational>> {
      | ^~~~~
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:165:31: error: expected '{' before 'unary_function'
  165 | : public CGAL::cpp98::unary_function<::yade::Real, NT_converter<::yade::Real, boost::multiprecision::mpq_rational>> {
      | ^~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:58: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<2>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<2>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:357: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<3>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<3>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:656: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<4>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<4>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:955: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<8>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<8>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:1255: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<10>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<10>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:244,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/RealHPEigenCgal.hpp:123:1560: error: invalid use of incomplete type 'class CGAL::RealHP_Is_valid<20>'
  123 | YADE_REGISTER_SELECTED_HP_LEVELS(YADE_CGAL_SUPPORT_REAL_HP)
      | ^
In file included from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:230,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/home/sacha.duverger/packages/yade/trunk/lib/high-precision/CgalNumTraits.hpp:39:30: note: declaration of 'class CGAL::RealHP_Is_valid<20>'
   39 | template <int levelHP> class RealHP_Is_valid : public CGAL::cpp98::unary_function<::yade::RealHP<levelHP>, bool> {
      | ^~~~~~~~~~~~~~~
gui/CMakeFiles/_GLViewer.dir/build.make:81: recipe for target 'gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o' failed
make[2]: *** [gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o] Error 1
CMakeFiles/Makefile2:301: recipe for target 'gui/CMakeFiles/_GLViewer.dir/all' failed
make[1]: *** [gui/CMakeFiles/_GLViewer.dir/all] Error 2
Makefile:148: recipe for target 'all' failed
make: *** [all] Error 2

####################################################################################################################################################################################
[2] : Running cmake and make with g++-7

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=g++-7 -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 7.5.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++-7 - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-int-in-bool-context -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Disabling RealHP<N>, this compiler is too old to make this work.
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:675 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:693 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath skipped
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK OpenMP GTS GUI-Qt5 CGAL FEMLIKE GL2PS PotentialParticles
-- Disabled features: RealHP mpmath MPFR PFVFLOW PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
-- Optimized build
-- C++ standard version: 17
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make output

[ 0%] Automatic MOC for target _GLViewer
[ 0%] Built target _GLViewer_autogen
[ 1%] Building CXX object gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o
[ 1%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o
[ 2%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o
[ 2%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/OpenGLManager.cpp.o
[ 3%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewerDisplay.cpp.o
[ 3%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewerMouse.cpp.o
[ 4%] Linking CXX shared library lib/x86_64-linux-gnu/_GLViewer.so
[ 4%] Built target _GLViewer
Scanning dependencies of target yade
[ 4%] Building CXX object CMakeFiles/yade.dir/core/Body.cpp.o
[ 5%] Building CXX object CMakeFiles/yade.dir/core/BodyContainer.cpp.o
[ 5%] Building CXX object CMakeFiles/yade.dir/core/Cell.cpp.o
[ 6%] Building CXX object CMakeFiles/yade.dir/core/Clump.cpp.o
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[ 7%] Building CXX object CMakeFiles/yade.dir/core/FileGenerator.cpp.o
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[ 7%] Building CXX object CMakeFiles/yade.dir/core/ForceContainerSerial.cpp.o
[ 8%] Building CXX object CMakeFiles/yade.dir/core/Interaction.cpp.o
[ 8%] Building CXX object CMakeFiles/yade.dir/core/InteractionContainer.cpp.o
/home/sacha.duverger/packages/yade/trunk/core/InteractionContainer.cpp:82:2: warning: #warning ("is cpu cost of this mutex known?") [-Wcpp]
 #warning("is cpu cost of this mutex known?")
  ^~~~~~~
[ 9%] Building CXX object CMakeFiles/yade.dir/core/MPIBodyContainer.cpp.o
[ 9%] Building CXX object CMakeFiles/yade.dir/core/Material.cpp.o
[ 10%] Building CXX object CMakeFiles/yade.dir/core/Omega.cpp.o
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[ 13%] Building CXX object CMakeFiles/yade.dir/pkg/common/Bo1_Aabb.cpp.o
[ 14%] Building CXX object CMakeFiles/yade.dir/pkg/common/Collider.cpp.o
[ 14%] Building CXX object CMakeFiles/yade.dir/pkg/common/Cylinder.cpp.o
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[ 15%] Building CXX object CMakeFiles/yade.dir/pkg/common/Facet.cpp.o
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[ 16%] Building CXX object CMakeFiles/yade.dir/pkg/common/Gl1_NormPhys.cpp.o
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[ 20%] Building CXX object CMakeFiles/yade.dir/pkg/common/InsertionSortCollider.cpp.o
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[ 21%] Building CXX object CMakeFiles/yade.dir/pkg/common/KinematicEngines.cpp.o
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[ 23%] Building CXX object CMakeFiles/yade.dir/pkg/common/ParallelEngine.cpp.o
[ 23%] Building CXX object CMakeFiles/yade.dir/pkg/common/ResetRandomPosition.cpp.o
[ 23%] Building CXX object CMakeFiles/yade.dir/pkg/common/SPHEngine.cpp.o
[ 24%] Building CXX object CMakeFiles/yade.dir/pkg/common/SpatialQuickSortCollider.cpp.o
[ 24%] Building CXX object CMakeFiles/yade.dir/pkg/common/Wall.cpp.o
[ 25%] Building CXX object CMakeFiles/yade.dir/pkg/common/common.cpp.o
[ 25%] Building CXX object CMakeFiles/yade.dir/pkg/dem/BlockGen.cpp.o
[ 26%] Building CXX object CMakeFiles/yade.dir/pkg/dem/BubbleMat.cpp.o
[ 26%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryPhys.cpp.o
[ 27%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryPhys1.cpp.o
[ 27%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryStressRecorder.cpp.o
[ 27%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CohesiveFrictionalContactLaw.cpp.o
[ 28%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ConcretePM.cpp.o
[ 28%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Disp2DPropLoadEngine.cpp.o
[ 29%] Building CXX object CMakeFiles/yade.dir/pkg/dem/DomainLimiter.cpp.o
[ 29%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ElasticContactLaw.cpp.o
[ 30%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FacetTopologyAnalyzer.cpp.o
[ 30%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FlatGridCollider.cpp.o
[ 31%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ForceTorqueRecorder.cpp.o
[ 31%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FrictPhys.cpp.o
[ 31%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FrictViscoPM.cpp.o
[ 32%] Building CXX object CMakeFiles/yade.dir/pkg/dem/GeneralIntegratorInsertionSortCollider.cpp.o
[ 32%] Building CXX object CMakeFiles/yade.dir/pkg/dem/GlobalStiffnessTimeStepper.cpp.o
[ 33%] Building CXX object CMakeFiles/yade.dir/pkg/dem/HertzMindlin.cpp.o
In file included from /home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.cpp:3:0:
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp: In member function 'virtual void yade::Law2_ScGeom_MindlinPhys_Mindlin::pySetAttr(const string&, const boost::python::api::object&)':
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:2776: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
   YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:2892: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
   YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:3006: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
   YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              ^
[ 33%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Box_Sphere_ScGeom.cpp.o
[ 34%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Facet_Sphere_ScGeom.cpp.o
[ 34%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_PB_PB_ScGeom.cpp.o
[ 35%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_PP_PP_ScGeom.cpp.o
[ 35%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Sphere_Sphere_ScGeom.cpp.o
[ 35%] Building CXX object CMakeFiles/yade.dir/pkg/dem/InelastCohFrictPM.cpp.o
[ 36%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Integrator.cpp.o
[ 36%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ip2_ElastMat.cpp.o
[ 37%] Building CXX object CMakeFiles/yade.dir/pkg/dem/JointedCohesiveFrictionalPM.cpp.o
[ 37%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KinemC__Engine.cpp.o
[ 38%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KinemSimpleShearBox.cpp.o
[ 38%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KnKsLaw.cpp.o
[ 39%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KnKsPBLaw.cpp.o
[ 39%] Building CXX object CMakeFiles/yade.dir/pkg/dem/L3Geom.cpp.o
[ 39%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Law2_ScGeom_CapillaryPhys_Capillarity.cpp.o
[ 40%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Law2_ScGeom_CapillaryPhys_Capillarity1.cpp.o
[ 40%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Lubrication.cpp.o
[ 41%] Building CXX object CMakeFiles/yade.dir/pkg/dem/LubricationWithPotential.cpp.o
[ 41%] Building CXX object CMakeFiles/yade.dir/pkg/dem/LudingPM.cpp.o
[ 42%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MeasureCapStress.cpp.o
[ 42%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MicroMacroAnalyser.cpp.o
[ 43%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MortarMat.cpp.o
[ 43%] Building CXX object CMakeFiles/yade.dir/pkg/dem/NewtonIntegrator.cpp.o
[ 43%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PDFEngine.cpp.o
[ 44%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PeriIsoCompressor.cpp.o
[ 44%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra.cpp.o
[ 45%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_Ig2.cpp.o
[ 45%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_splitter.cpp.o
[ 46%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_support.cpp.o
[ 46%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialBlock.cpp.o
[ 47%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialBlock2AABB.cpp.o
[ 47%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialParticle.cpp.o
[ 47%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialParticle2AABB.cpp.o
[ 48%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RockBolt.cpp.o
[ 48%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RockLiningGlobal.cpp.o
[ 49%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RungeKuttaCashKarp54Integrator.cpp.o
[ 49%] Building CXX object CMakeFiles/yade.dir/pkg/dem/STLImporter.cpp.o
[ 50%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SampleCapillaryPressureEngine.cpp.o
[ 50%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ScGeom.cpp.o
[ 51%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Shop_01.cpp.o
[ 51%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Shop_02.cpp.o
[ 51%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SimpleShear.cpp.o
[ 52%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SnapshotEngine.cpp.o
[ 52%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SpherePack.cpp.o
[ 53%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SpheresFactory.cpp.o
[ 53%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TesselationWrapper.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809:0,
                 from /usr/include/python3.6m/numpy/ndarrayobject.h:18,
                 from /usr/include/python3.6m/numpy/arrayobject.h:4,
                 from /home/sacha.duverger/packages/yade/trunk/lib/pyutil/numpy_boost.hpp:45,
                 from /home/sacha.duverger/packages/yade/trunk/pkg/dem/TesselationWrapper.cpp:22:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^~~~~~~
[ 54%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Tetra.cpp.o
[ 54%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ThreeDTriaxialEngine.cpp.o
[ 55%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialCompressionEngine.cpp.o
[ 55%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialStateRecorder.cpp.o
[ 55%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialStressController.cpp.o
[ 56%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialTest.cpp.o
[ 56%] Building CXX object CMakeFiles/yade.dir/pkg/dem/UnbalancedForceCallbacks.cpp.o
[ 57%] Building CXX object CMakeFiles/yade.dir/pkg/dem/UniaxialStrainer.cpp.o
[ 57%] Building CXX object CMakeFiles/yade.dir/pkg/dem/VTKRecorder.cpp.o
[ 58%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ViscoelasticCapillarPM.cpp.o
In file included from /home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.cpp:1:0:
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp: In member function 'virtual void yade::Law2_ScGeom_ViscElCapPhys_Basic::pySetAttr(const string&, const boost::python::api::object&)':
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp:89:1245: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
  YADE_CLASS_BASE_DOC_ATTRS_CTOR_PY(Law2_ScGeom_ViscElCapPhys_Basic,LawFunctor,"Extended version of Linear viscoelastic model with capillary parameters.",
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp:89:1347: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
  YADE_CLASS_BASE_DOC_ATTRS_CTOR_PY(Law2_ScGeom_ViscElCapPhys_Basic,LawFunctor,"Extended version of Linear viscoelastic model with capillary parameters.",
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   ^
[ 58%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ViscoelasticPM.cpp.o
[ 59%] Building CXX object CMakeFiles/yade.dir/pkg/dem/WirePM.cpp.o
[ 59%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Bo1_DeformableElement_Aabb.cpp.o
[ 59%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Bo1_Node_Aabb.cpp.o
[ 60%] Building CXX object CMakeFiles/yade.dir/pkg/fem/CohesiveMat.cpp.o
[ 60%] Building CXX object CMakeFiles/yade.dir/pkg/fem/DeformableCohesiveElement.cpp.o
[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/fem/DeformableElement.cpp.o
[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/fem/FEInternalForceDispatchers.cpp.o
[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/fem/FEInternalForceEngine.cpp.o
[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Gl1_DeformableElement.cpp.o
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[ 63%] Building CXX object CMakeFiles/yade.dir/pkg/fem/If2_2xLin4NodeTetra_LinCohesiveStiffPropDampElastMat.cpp.o
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[ 65%] Building CXX object CMakeFiles/yade.dir/pkg/fem/LinElastMat.cpp.o
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[ 66%] Building CXX object CMakeFiles/yade.dir/pkg/lbm/HydrodynamicsLawLBM.cpp.o
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[ 69%] Building CXX object CMakeFiles/yade.dir/pkg/pfv/SoluteFlowEngine.cpp.o
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[ 70%] Building CXX object CMakeFiles/yade.dir/pkg/pfv/TwoPhaseFlowEngine.cpp.o
[ 71%] Building CXX object CMakeFiles/yade.dir/pkg/pfv/UnsaturatedEngine.cpp.o
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[ 71%] Building CXX object CMakeFiles/yade.dir/lib/high-precision/RealHPConfig.cpp.o
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[ 72%] Building CXX object CMakeFiles/yade.dir/lib/factory/DynLibManager.cpp.o
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[ 73%] Building CXX object CMakeFiles/yade.dir/lib/compatibility/LapackCompatibility.cpp.o
[ 74%] Building CXX object CMakeFiles/yade.dir/lib/compatibility/VTKCompatibility.cpp.o
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[ 75%] Building CXX object CMakeFiles/yade.dir/lib/pyutil/gil.cpp.o
[ 75%] Building CXX object CMakeFiles/yade.dir/core/main/pyboot.cpp.o
[ 75%] Building CXX object CMakeFiles/yade.dir/lib/opengl/GLUtils.cpp.o
[ 76%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/KinematicLocalisationAnalyser.cpp.o
[ 76%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/Tenseur3.cpp.o
[ 77%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/Timer.cpp.o
[ 77%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/TriaxialState.cpp.o
[ 78%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/basicVTKwritter.cpp.o
[ 78%] Building CXX object CMakeFiles/yade.dir/lib/computational-geometry/MarchingCube.cpp.o
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[ 79%] Built target yade
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[ 80%] Building CXX object CMakeFiles/boot.dir/core/main/pyboot.cpp.o
[ 80%] Linking CXX shared library lib/x86_64-linux-gnu/boot.so
[ 80%] Built target boot
Scanning dependencies of target _gts
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[ 81%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/edge.cpp.o
[ 81%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/face.cpp.o
[ 82%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/object.cpp.o
[ 82%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/point.cpp.o
[ 83%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/pygts.cpp.o
[ 83%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/segment.cpp.o
[ 83%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/surface.cpp.o
[ 84%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/triangle.cpp.o
[ 84%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/vertex.cpp.o
[ 85%] Linking CXX shared library lib/x86_64-linux-gnu/_gts.so
[ 85%] Built target _gts
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[ 85%] Building CXX object py/CMakeFiles/_libVersions.dir/_libVersions.cpp.o
[ 86%] Linking CXX shared library lib/x86_64-linux-gnu/_libVersions.so
[ 86%] Built target _libVersions
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[ 87%] Building CXX object py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809:0,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:14:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^~~~~~~
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[ 87%] Building CXX object py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o
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Scanning dependencies of target _log
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[ 89%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_minieigenHP.cpp.o
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[ 90%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeComplex1.cpp.o
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[ 93%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeVectors1.cpp.o
[ 94%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeVectors2.cpp.o
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[ 95%] Building CXX object py/CMakeFiles/_packPredicates.dir/pack/_packPredicates.cpp.o
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[ 96%] Built target _math
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[ 97%] Building CXX object py/CMakeFiles/_utils.dir/_utils.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809:0,
                 from /usr/include/python3.6m/numpy/ndarrayobject.h:18,
                 from /usr/include/python3.6m/numpy/arrayobject.h:4,
                 from /home/sacha.duverger/packages/yade/trunk/py/_utils.cpp:8:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^~~~~~~
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[ 98%] Built target _packSpheres
Scanning dependencies of target wrapper
[ 98%] Building CXX object py/CMakeFiles/wrapper.dir/wrapper/yadeWrapper.cpp.o
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[100%] Built target _customConverters

## make install output

[ 0%] Automatic MOC for target _GLViewer
[ 0%] Built target _GLViewer_autogen
[ 4%] Built target _GLViewer
[ 79%] Built target yade
[ 80%] Built target boot
[ 85%] Built target _gts
[ 86%] Built target _libVersions
[ 87%] Built target _polyhedra_utils
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[ 96%] Built target _math
[ 96%] Built target WeightedAverage2d
[ 97%] Built target _utils
[ 98%] Built target _packSpheres
[ 99%] Built target wrapper
[100%] Built target _customConverters
Install the project...
-- Install configuration: "Release"
-- Installing: /home/sacha.duverger/packages/yade/install/bin/yade-2020-10-20.git-427f64c-batch
-- Installing: /home/sacha.duverger/packages/yade/install/bin/yade-2020-10-20.git-427f64c
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/config.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/libVersions.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/DEM-PFV-check.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkAvoidSelfInteractionMask.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkBlockGen.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkCapillaryModels.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkClumpHopper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkColliderConstantness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkColliderCorrectness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkDEM-PFVPressureInjection.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkGravity.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkJCFpm.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLiquidMigration.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkList.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLubrication.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLubricationWithRoughness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkMPI.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPolyhedraCrush.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialBlocks.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialParticles.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialVTKRecorders.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkSaveLoadClumps.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkTestDummy.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkTestTriax.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkVTKRecorder.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElEng.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElPM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElPM2.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkWeight.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkWirePM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/check_TwoPhaseFlowEngine_PressureInjection.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGui.sh
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGuiEmpty.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGuiSimple.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/testGuiHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkColider.txt
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkJCFpm.spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/pp-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pb-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pp-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkTestTriax.spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/100spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkColliderCorrect.txt
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/WallStressesCheckTest
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/joints.csv
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_1.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/share/doc/yade-2020-10-20.git-427f64c/img/yade-logo-note.png
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/math.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/minieigenHP.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/testMathHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/boot.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/boot.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/libyade.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/libyade.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/Inspector.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/SerializableEditor.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/img_rc.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/ui_controller.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/Inspector.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/SerializableEditor.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/__init__.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/img_rc.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/ui_controller.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/pygts.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/_gts.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/_gts.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_extraDocs.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/bisectionDecomposition.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/bodiesHandling.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/coloring.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/deformableelementsutils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/domaindecomposition.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/export.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/geom.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/gridpfacet.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/linterpolation.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/log.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/mpy.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/params.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/plot.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/polyhedra_utils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/post2d.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/remote.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/runtime.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/system.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/timing.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/utils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/ymport.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/pack.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/mtTkinter.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/clump.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/cohesive-chain.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/core.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/dummyTest.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/engines.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/enumTest.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/libVersions.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/pbc.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testColliderByGiulia.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMath.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMathHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMinieigenHP.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/utilsModule.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/wrapper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/performance/checkPerf.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/performance/performance.db
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/mpipool.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEM2D.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEM3D.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEMup.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/saveGauss.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/simDEM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_libVersions.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_libVersions.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_log.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_log.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_math.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_math.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_minieigenHP.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_minieigenHP.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/WeightedAverage2d.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/WeightedAverage2d.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_utils.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_utils.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_polyhedra_utils.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_polyhedra_utils.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packPredicates.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packPredicates.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packSpheres.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packSpheres.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packObb.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packObb.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/wrapper.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/wrapper.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_customConverters.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_customConverters.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"

####################################################################################################################################################################################
[3] : Trying to launch YADE compiled with g++-7

## output when executing install/bin/yade-2020-10-20.git-427f64c

Welcome to Yade 2020-10-20.git-427f64c
Using python version: 3.6.9 (default, Oct 8 2020, 12:12:24)
[GCC 8.4.0]
Segmentation fault (core dumped)

####################################################################################################################################################################################
[4] : Using gdb to investigate the segmentation fault

## gdb session

GNU gdb (Ubuntu 8.2-0ubuntu1~18.04) 8.2
Copyright (C) 2018 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
Type "show copying" and "show warranty" for details.
This GDB was configured as "x86_64-linux-gnu".
Type "show configuration" for configuration details.
For bug reporting instructions, please see:
<http://www.gnu.org/software/gdb/bugs/>.
Find the GDB manual and other documentation resources online at:
    <http://www.gnu.org/software/gdb/documentation/>.

For help, type "help".
Type "apropos word" to search for commands related to "word".
(gdb) file python3
Reading symbols from python3...(no debugging symbols found)...done.
(gdb) run install/bin/yade-2020-10-20.git-427f64c
Starting program: /usr/bin/python3 install/bin/yade-2020-10-20.git-427f64c
[Thread debugging using libthread_db enabled]
Using host libthread_db library "/lib/x86_64-linux-gnu/libthread_db.so.1".
Welcome to Yade 2020-10-20.git-427f64c
Using python version: 3.6.9 (default, Oct 8 2020, 12:12:24)
[GCC 8.4.0]

Program received signal SIGSEGV, Segmentation fault.
0x00007ffff59aac00 in ?? ()
(gdb) bt
#0 0x00007ffff59aac00 in ?? ()
#1 0x00007ffff15411e6 in std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >::_M_replace(unsigned long, unsigned long, char const*, unsigned long) ()
   from /usr/lib/x86_64-linux-gnu/libstdc++.so.6
#2 0x00007fffe13c3689 in Configuration::Lookup(Configuration::Item*, char const*, unsigned long const&, bool const&) () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#3 0x00007fffe13c3794 in Configuration::Lookup(char const*, bool const&) () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#4 0x00007fffe13c386f in Configuration::CndSet(char const*, int) () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#5 0x00007fffe144d103 in pkgInitConfig(Configuration&) () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#6 0x00007fffe16ebed8 in ?? () from /usr/lib/python3/dist-packages/apt_pkg.cpython-36m-x86_64-linux-gnu.so
#7 0x000000000050a12f in ?? ()
#8 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#9 0x0000000000507be4 in ?? ()
#10 0x0000000000516069 in ?? ()
#11 0x0000000000566fae in PyCFunction_Call ()
#12 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#13 0x0000000000507be4 in ?? ()
#14 0x0000000000509900 in ?? ()
#15 0x000000000050a2fd in ?? ()
#16 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#17 0x00000000005095c8 in ?? ()
#18 0x000000000050a2fd in ?? ()
#19 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#20 0x00000000005095c8 in ?? ()
#21 0x000000000050a2fd in ?? ()
#22 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#23 0x00000000005095c8 in ?? ()
#24 0x000000000050a2fd in ?? ()
#25 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#26 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#27 0x00000000005a4c61 in _PyObject_FastCallDict ()
#28 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#29 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#30 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#31 0x0000000000507be4 in ?? ()
#32 0x0000000000516069 in ?? ()
#33 0x0000000000566fae in PyCFunction_Call ()
#34 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#35 0x0000000000507be4 in ?? ()
#36 0x0000000000509900 in ?? ()
#37 0x000000000050a2fd in ?? ()
#38 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#39 0x00000000005095c8 in ?? ()
#40 0x000000000050a2fd in ?? ()
#41 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#42 0x00000000005095c8 in ?? ()
#43 0x000000000050a2fd in ?? ()
#44 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#45 0x00000000005095c8 in ?? ()
#46 0x000000000050a2fd in ?? ()
#47 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#48 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#49 0x00000000005a4c61 in _PyObject_FastCallDict ()
--Type <RET> for more, q to quit, c to continue without paging--c
#50 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#51 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#52 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#53 0x0000000000507be4 in ?? ()
#54 0x0000000000516069 in ?? ()
#55 0x0000000000566fae in PyCFunction_Call ()
#56 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#57 0x0000000000507be4 in ?? ()
#58 0x0000000000509900 in ?? ()
#59 0x000000000050a2fd in ?? ()
#60 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#61 0x00000000005095c8 in ?? ()
#62 0x000000000050a2fd in ?? ()
#63 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#64 0x00000000005095c8 in ?? ()
#65 0x000000000050a2fd in ?? ()
#66 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#67 0x00000000005095c8 in ?? ()
#68 0x000000000050a2fd in ?? ()
#69 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#70 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#71 0x00000000005a4c61 in _PyObject_FastCallDict ()
#72 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#73 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#74 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#75 0x0000000000507be4 in ?? ()
#76 0x0000000000516069 in ?? ()
#77 0x0000000000566fae in PyCFunction_Call ()
#78 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#79 0x0000000000507be4 in ?? ()
#80 0x0000000000509900 in ?? ()
#81 0x000000000050a2fd in ?? ()
#82 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#83 0x00000000005095c8 in ?? ()
#84 0x000000000050a2fd in ?? ()
#85 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#86 0x00000000005095c8 in ?? ()
#87 0x000000000050a2fd in ?? ()
#88 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#89 0x00000000005095c8 in ?? ()
#90 0x000000000050a2fd in ?? ()
#91 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#92 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#93 0x00000000005a4c61 in _PyObject_FastCallDict ()
#94 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#95 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#96 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#97 0x0000000000507be4 in ?? ()
#98 0x0000000000516069 in ?? ()
#99 0x0000000000566fae in PyCFunction_Call ()
#100 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#101 0x0000000000507be4 in ?? ()
#102 0x0000000000509900 in ?? ()
#103 0x000000000050a2fd in ?? ()
#104 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#105 0x00000000005095c8 in ?? ()
#106 0x000000000050a2fd in ?? ()
#107 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#108 0x00000000005095c8 in ?? ()
#109 0x000000000050a2fd in ?? ()
#110 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#111 0x00000000005095c8 in ?? ()
#112 0x000000000050a2fd in ?? ()
#113 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#114 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#115 0x00000000005a4c61 in _PyObject_FastCallDict ()
#116 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#117 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#118 0x00000000005140a4 in ?? ()
#119 0x0000000000566f73 in PyCFunction_Call ()
#120 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#121 0x0000000000507be4 in ?? ()
#122 0x0000000000509900 in ?? ()
#123 0x000000000050a2fd in ?? ()
#124 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#125 0x00000000005095c8 in ?? ()
#126 0x000000000050a2fd in ?? ()
#127 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#128 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#129 0x00000000005a4c61 in _PyObject_FastCallDict ()
#130 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#131 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#132 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#133 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#134 0x00000000005a4c61 in _PyObject_FastCallDict ()
#135 0x000000000063831b in PyErr_PrintEx ()
#136 0x0000000000638703 in PyRun_SimpleFileExFlags ()
#137 0x0000000000639281 in Py_Main ()
#138 0x00000000004b0dc0 in main ()

Question information

Language:
English Edit question
Status:
Solved
For:
Yade Edit question
Assignee:
No assignee Edit question
Solved by:
Janek Kozicki
Solved:
2020-11-03
Last query:
2020-11-03
Last reply:
2020-11-02

This question was reopened

Hi,
Please try fresh install. You are currently building+installing in the same path regardless of the g++ version, this alone could cause trouble.
Bruno

Janek Kozicki (cosurgi) said : #2

Hi,

it's not a problem with yade. It is built everyday with following compiler versions:

suse15 gcc 7.5.0
stretch gcc 6.3.0
clang clang 9.0.1
buster gcc 8.3.0
bullseye gcc 10.2.0
bullseye 32bit gcc 9.2.1
20_04 gcc 9.3.0
18_04 gcc 7.5.0
16_04 gcc 5.4.0

see e.g. [1]. The problem is with your local setup. Part of which is what Bruno said. But also you have to make sure to install all necessary packages in versions requested by your g++ compiler. For start you could check what is recommended by the packages you have already installed. Then find what other packages you might need. These will not be packages required by yade to build (such as Eigen or boost: they are OK), these will be packages which form the build toolchain for your g++. I suppose that you might find out what are those packages by trying to compile yade with clang and seeing what it recommends. But remember to always build in a fresh build tree dir.

[1] https://gitlab.com/yade-dev/trunk/-/pipelines/208516884

Sacha Duverger (schmxprr) said : #3

Thank you for your answers,

Before trying to compile with g++-7 I emptied the "build" and "install" directories (with "rm -r build/* install/*"), this counts has a fresh directory right? Anyway, I tried to start from a really fresh directory (with another name) and had the same problem.

The g++-9 installed on my machine worked well when I used it to compile another package (this package is the reason why I upgraded g++ in the first place). Can there still be a problem with g++-9's necessary packages while it already worked for another package than YADE?

I tried to compile YADE with clang but I don't see where I can identify which package cause problems with g++. See [1] for the outputs of cmake and make install.

I also tried to uninstall and reinstall all of my g++ versions, hoping that it could fix problems on the necessary packages, but it still doesn't work.

####################################################################################################################################################################################
[1] : Running cmake and make with clang

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=clang -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is Clang 6.0.0
-- The CXX compiler identification is Clang 6.0.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/clang - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Disabling RealHP<N>, this compiler is too old to make this work.
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:642 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp=libomp (found version "3.1")
-- Could NOT find OpenMP_CXX (missing: OpenMP_CXX_FLAGS OpenMP_CXX_LIB_NAMES)
-- Could NOT find OpenMP (missing: OpenMP_CXX_FOUND) (found version "3.1")
-- OpenMP NOT found
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:675 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:693 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- CGAL NOT found
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath skipped
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK GTS GUI-Qt5 FEMLIKE GL2PS PotentialParticles
-- Disabled features: RealHP mpmath MPFR OPENMP CGAL PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
-- Optimized build
-- C++ standard version: 14
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make install output

Scanning dependencies of target _GLViewer_autogen
[ 0%] Automatic MOC for target _GLViewer
Scanning dependencies of target _gts
Scanning dependencies of target _packObb
[ 0%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o
[ 1%] Building CXX object py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o
Scanning dependencies of target _polyhedra_utils
[ 1%] Building CXX object py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o
clang: error: unknown argument: '-fdce'
py/CMakeFiles/_gts.dir/build.make:81: recipe for target 'py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o' failed
make[2]: *** [py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o] Error 1
CMakeFiles/Makefile2:355: recipe for target 'py/CMakeFiles/_gts.dir/all' failed
make[1]: *** [py/CMakeFiles/_gts.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
clang: error: unknown argument: '-fdce'
py/CMakeFiles/_packObb.dir/build.make:81: recipe for target 'py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o' failed
make[2]: *** [py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o] Error 1
CMakeFiles/Makefile2:437: recipe for target 'py/CMakeFiles/_packObb.dir/all' failed
make[1]: *** [py/CMakeFiles/_packObb.dir/all] Error 2
clang: error: unknown argument: '-fdce'
py/CMakeFiles/_polyhedra_utils.dir/build.make:81: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o' failed
make[2]: *** [py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o] Error 1
CMakeFiles/Makefile2:410: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/all' failed
make[1]: *** [py/CMakeFiles/_polyhedra_utils.dir/all] Error 2
[ 1%] Built target _GLViewer_autogen
Makefile:148: recipe for target 'all' failed
make: *** [all] Error 2

Anton Gladky (gladky-anton) said : #4

Hi,

you are compiling with clang, not with gcc:

-- The C compiler identification is Clang 6.0.0
-- The CXX compiler identification is Clang 6.0.0

Be sure to have empty CC and CXX environmental variables.
Or set them explicitly.

Regards

Anton

Am Do., 29. Okt. 2020 um 18:41 Uhr schrieb Sacha Duverger
<email address hidden>:
>
> Question #693698 on Yade changed:
> https://answers.launchpad.net/yade/+question/693698
>
> Sacha Duverger posted a new comment:
> Thank you for your answers,
>
> Before trying to compile with g++-7 I emptied the "build" and "install"
> directories (with "rm -r build/* install/*"), this counts has a fresh
> directory right? Anyway, I tried to start from a really fresh directory
> (with another name) and had the same problem.
>
> The g++-9 installed on my machine worked well when I used it to compile
> another package (this package is the reason why I upgraded g++ in the
> first place). Can there still be a problem with g++-9's necessary
> packages while it already worked for another package than YADE?
>
> I tried to compile YADE with clang but I don't see where I can identify
> which package cause problems with g++. See [1] for the outputs of cmake
> and make install.
>
> I also tried to uninstall and reinstall all of my g++ versions, hoping
> that it could fix problems on the necessary packages, but it still
> doesn't work.
>
> ####################################################################################################################################################################################
> [1] : Running cmake and make with clang
>
> ## cmake command
>
> cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF
> -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF
> -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=clang
> -DCMAKE_INSTALL_PREFIX=../install ../trunk
>
> ## cmake output
>
> -- The C compiler identification is Clang 6.0.0
> -- The CXX compiler identification is Clang 6.0.0
> -- Detecting C compiler ABI info
> -- Detecting C compiler ABI info - done
> -- Check for working C compiler: /usr/bin/cc - skipped
> -- Detecting C compile features
> -- Detecting C compile features - done
> -- Detecting CXX compiler ABI info
> -- Detecting CXX compiler ABI info - done
> -- Check for working CXX compiler: /usr/bin/clang - skipped
> -- Detecting CXX compile features
> -- Detecting CXX compile features - done
> -- Version is set to 2020-10-20.git-427f64c
> -- GCC Version >= 4.8. Adding -save-temps
> -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
> -- Log filtering: enabled
> -- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
> Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
> -- Found PythonInterp: /usr/bin/python (found version "2.7.17")
> -- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
> Python version 3.6.9 found, try to import dependencies...
> -- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
> -- Found IPython: /usr/lib/python3/dist-packages/IPython
> -- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
> -- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
> -- Found Xlib: /usr/lib/python3/dist-packages/Xlib
> -- Found future: /usr/lib/python3/dist-packages/future
> -- Found past: /usr/lib/python3/dist-packages/past
> -- Found tkinter: /usr/lib/python3.6/tkinter
> -- Boost_VERSION: 106501
> -- Boost_LIB_VERSION: 1_65_1
> -- Boost_INCLUDE_DIRS: /usr/include
> -- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
> Found all python dependencies with version 3.6.9, will compile yade with that.
> -- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-error=cpp -fdce -fstack-protector-strong
> -- Determining preferred precision of Real numbers
> -- Will now try to find python-mpmath using /usr/bin/python3.6
> -- Disabling RealHP<N>, this compiler is too old to make this work.
> -- mpfr disabled
> -- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
> -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
> -- Looking for BZ2_bzCompressInit
> -- Looking for BZ2_bzCompressInit - found
> -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
> -- Found Eigen3, version: 3.3.4
> -- Disable vectorization
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkCommonCore' component is 'CommonCore'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkIOImage' component is 'IOImage'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkIOXML' component is 'IOXML'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkFiltersCore' component is 'FiltersCore'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkImagingCore' component is 'ImagingCore'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkRenderingCore' component is 'RenderingCore'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
> The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
> Call Stack (most recent call first):
> CMakeLists.txt:642 (FIND_PACKAGE)
>
>
> -- Found Threads: TRUE
> -- Found VTK
> -- Found OpenMP_C: -fopenmp=libomp (found version "3.1")
> -- Could NOT find OpenMP_CXX (missing: OpenMP_CXX_FLAGS OpenMP_CXX_LIB_NAMES)
> -- Could NOT find OpenMP (missing: OpenMP_CXX_FOUND) (found version "3.1")
> -- OpenMP NOT found
> -- GTS using gts-config /usr/bin/gts-config
> -- Using GTS from /usr
> CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
> The package name passed to `find_package_handle_standard_args` (PkgConfig)
> does not match the name of the calling package (glib2). This can lead to
> problems in calling code that expects `find_package` result variables
> (e.g., `_FOUND`) to follow a certain pattern.
> Call Stack (most recent call first):
> /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
> cMake/Findglib2.cmake:30 (INCLUDE)
> CMakeLists.txt:675 (FIND_PACKAGE)
> This warning is for project developers. Use -Wno-dev to suppress it.
>
> -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
> -- Checking for one of the modules 'glib-2.0'
> -- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
> -- Looking for include file glib/gregex.h
> -- Looking for include file glib/gregex.h - not found
> -- Found GTS
> CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
> Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
> available. Run "cmake --help-policy CMP0072" for policy details. Use the
> cmake_policy command to set the policy and suppress this warning.
>
> FindOpenGL found both a legacy GL library:
>
> OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so
>
> and GLVND libraries for OpenGL and GLX:
>
> OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
> OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so
>
> OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
> compatibility with CMake 3.10 and below the legacy GL library will be used.
> Call Stack (most recent call first):
> CMakeLists.txt:693 (FIND_PACKAGE)
> This warning is for project developers. Use -Wno-dev to suppress it.
>
> -- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
> -- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
> -- USE QT5
> -- Found QGLVIEWER-qt5: /usr/include/QGLViewer
> -- Found GUI-Qt5-LIBS
> -- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
> -- Found GMP: /usr/include/x86_64-linux-gnu
> -- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
> -- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
> -- CGAL NOT found
> -- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
> -- Found GL2PS
> -- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
> -- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
> -- Looking for sgemm_
> -- Looking for sgemm_ - not found
> -- Looking for sgemm_
> -- Looking for sgemm_ - found
> -- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
> -- Looking for cheev_
> -- Looking for cheev_ - found
> -- A library with LAPACK API found.
> -- Found OpenBlas
> -- Found Lapack
> -- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
> -- freegult version is 2.8.1
> Yade will be installed to /home/sacha.duverger/packages/yade/install
> -- Suffix is set to -2020-10-20.git-427f64c
> -- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
> -- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
> -- Could NOT find gts (missing: PY_gts)
> -- Use embedded version of gts. Please, consider installing the corresponding package
> -- linking -lquadmath skipped
> -- VTK version >7 is found
> -- ===========================================================
> -- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK GTS GUI-Qt5 FEMLIKE GL2PS PotentialParticles
> -- Disabled features: RealHP mpmath MPFR OPENMP CGAL PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
> -- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
> -- Optimized build
> -- C++ standard version: 14
> -- ===========================================================
> -- Configuring done
> -- Generating done
> -- Build files have been written to: /home/sacha.duverger/packages/yade/build
>
> ## make install output
>
> Scanning dependencies of target _GLViewer_autogen
> [ 0%] Automatic MOC for target _GLViewer
> Scanning dependencies of target _gts
> Scanning dependencies of target _packObb
> [ 0%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o
> [ 1%] Building CXX object py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o
> Scanning dependencies of target _polyhedra_utils
> [ 1%] Building CXX object py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o
> clang: error: unknown argument: '-fdce'
> py/CMakeFiles/_gts.dir/build.make:81: recipe for target 'py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o' failed
> make[2]: *** [py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o] Error 1
> CMakeFiles/Makefile2:355: recipe for target 'py/CMakeFiles/_gts.dir/all' failed
> make[1]: *** [py/CMakeFiles/_gts.dir/all] Error 2
> make[1]: *** Waiting for unfinished jobs....
> clang: error: unknown argument: '-fdce'
> py/CMakeFiles/_packObb.dir/build.make:81: recipe for target 'py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o' failed
> make[2]: *** [py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o] Error 1
> CMakeFiles/Makefile2:437: recipe for target 'py/CMakeFiles/_packObb.dir/all' failed
> make[1]: *** [py/CMakeFiles/_packObb.dir/all] Error 2
> clang: error: unknown argument: '-fdce'
> py/CMakeFiles/_polyhedra_utils.dir/build.make:81: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o' failed
> make[2]: *** [py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o] Error 1
> CMakeFiles/Makefile2:410: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/all' failed
> make[1]: *** [py/CMakeFiles/_polyhedra_utils.dir/all] Error 2
> [ 1%] Built target _GLViewer_autogen
> Makefile:148: recipe for target 'all' failed
> make: *** [all] Error 2
>
> You received this question notification because your team yade-users is
> an answer contact for Yade.
>
> _______________________________________________
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Janek Kozicki (cosurgi) said : #5

@Anton: I suggested to try clang as a way to find out what's missing for g++-9 (his first post).

@Sacha: Right, sorry. It seems that clang 6 on ubuntu 18.04 is too old to help us here.

I suppose that you have packages such as libgcc-9-dev and related.

This error with g++9: /usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration

rings a bell, I had it once. I just don't remember right now what it was related with.

Janek Kozicki (cosurgi) said : #6

It's worth checking if your boost version supports correctly g++-9

Janek Kozicki (cosurgi) said : #7

Or maybe I did not take into account in CMakeLists.txt the combination of package versions which you are using.

Try this, in CMakeLists.txt, where you have this warning:

  RealHP<N> higher precision types will use slow boost cpp_bin_float, consider passing cmake option ENABLE_MPFR=ON to fix this.

Add:

SET(REAL_MULTI_HP "OFF")

And try your first attempt at compiling with g++-9. Make sure that this change removes RealHP from features and see if that changes the compilation effects.

Janek Kozicki (cosurgi) said : #8

If this works I would like to see yade's printAllVersions(); output to fix CMakeLists.txt

(sorry for multiple posts :)

Sacha Duverger (schmxprr) said : #9

Thank you for these suggestions

The version of libboost-all-dev installed on my machine is 1.65.1.0ubuntu1, but I couldn't figure out if it is compatible with g++-9.

I added " SET(REAL_MULTI_HP "OFF") " right after the warning in CMakeLists.txt . The output of cmake says that RealHP is indeed disabled, but make still fails. The compilation is going a little further though : 7% instead of 1% when RealHP was enabled.

Here are the outputs :
 ####################################################################################################################################################################################
Running cmake and make with g++-9 and RealHP disabled

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=g++-9 -DCMAKE_C_COMPILER=gcc-9 -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc-9 - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++-9 - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Warning: RealHP<N> higher precision types will use slow boost cpp_bin_float, consider passing cmake option ENABLE_MPFR=ON to fix this.
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:676 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:694 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath skipped
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK OpenMP GTS GUI-Qt5 CGAL FEMLIKE GL2PS PotentialParticles
-- Disabled features: RealHP mpmath MPFR PFVFLOW PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
-- Optimized build
-- C++ standard version: 17
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make install output

Scanning dependencies of target _GLViewer_autogen
[ 0%] Automatic MOC for target _GLViewer
Scanning dependencies of target _gts
Scanning dependencies of target _polyhedra_utils
Scanning dependencies of target _packObb
[ 0%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o
[ 0%] Building CXX object py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o
[ 1%] Building CXX object py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o
[ 1%] Built target _GLViewer_autogen
[ 2%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/edge.cpp.o
Scanning dependencies of target WeightedAverage2d
[ 2%] Building CXX object py/CMakeFiles/WeightedAverage2d.dir/WeightedAverage2d.cpp.o
[ 2%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/face.cpp.o
[ 3%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/object.cpp.o
[ 3%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/point.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/pygts.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/segment.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/surface.cpp.o
[ 5%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/triangle.cpp.o
[ 5%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/vertex.cpp.o
[ 6%] Linking CXX shared library lib/x86_64-linux-gnu/_gts.so
[ 6%] Built target _gts
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:14:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
Scanning dependencies of target _GLViewer
[ 7%] Building CXX object gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/py/pack/_packObb.cpp:6:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/ext/string_conversions.h:41,
                 from /usr/include/c++/9/bits/basic_string.h:6493,
                 from /usr/include/c++/9/string:55,
                 from /usr/include/c++/9/stdexcept:39,
                 from /usr/include/c++/9/array:39,
                 from /usr/include/c++/9/tuple:39,
                 from /usr/include/c++/9/mutex:38,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Singleton.hpp:5,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Logging.hpp:36,
                 from /home/sacha.duverger/packages/yade/trunk/py/pack/_packObb.cpp:5:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/lib/smoothing/WeightedAverage2d.hpp:5,
                 from /home/sacha.duverger/packages/yade/trunk/py/WeightedAverage2d.cpp:2:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/ext/string_conversions.h:41,
                 from /usr/include/c++/9/bits/basic_string.h:6493,
                 from /usr/include/c++/9/string:55,
                 from /usr/include/c++/9/stdexcept:39,
                 from /usr/include/c++/9/array:39,
                 from /usr/include/c++/9/tuple:39,
                 from /usr/include/c++/9/mutex:38,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Singleton.hpp:5,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Logging.hpp:36,
                 from /home/sacha.duverger/packages/yade/trunk/py/WeightedAverage2d.cpp:1:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:9:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/ext/string_conversions.h:41,
                 from /usr/include/c++/9/bits/basic_string.h:6493,
                 from /usr/include/c++/9/string:55,
                 from /usr/include/c++/9/stdexcept:39,
                 from /usr/include/c++/9/array:39,
                 from /usr/include/c++/9/tuple:39,
                 from /usr/include/c++/9/mutex:38,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Singleton.hpp:5,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Logging.hpp:36,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:7:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
py/CMakeFiles/_packObb.dir/build.make:81: recipe for target 'py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o' failed
make[2]: *** [py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o] Error 1
CMakeFiles/Makefile2:437: recipe for target 'py/CMakeFiles/_packObb.dir/all' failed
make[1]: *** [py/CMakeFiles/_packObb.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
[ 7%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o
py/CMakeFiles/WeightedAverage2d.dir/build.make:81: recipe for target 'py/CMakeFiles/WeightedAverage2d.dir/WeightedAverage2d.cpp.o' failed
make[2]: *** [py/CMakeFiles/WeightedAverage2d.dir/WeightedAverage2d.cpp.o] Error 1
CMakeFiles/Makefile2:577: recipe for target 'py/CMakeFiles/WeightedAverage2d.dir/all' failed
make[1]: *** [py/CMakeFiles/WeightedAverage2d.dir/all] Error 2
[ 8%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/stdlib.h:36,
                 from /usr/include/python3.6m/Python.h:34,
                 from /usr/include/boost/python/detail/wrap_python.hpp:151,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:14,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/../../../../trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/OXRBQHTNNB/moc_GLViewer.cpp:9,
                 from /home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/mocs_compilation.cpp:2:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.cpp:9:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/stdlib.h:36,
                 from /usr/include/python3.6m/Python.h:34,
                 from /usr/include/boost/python/detail/wrap_python.hpp:151,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:14,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.cpp:9:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
In file included from /usr/include/boost/cstdfloat.hpp:27,
                 from /home/sacha.duverger/packages/yade/trunk/lib/high-precision/Real.hpp:74,
                 from /home/sacha.duverger/packages/yade/trunk/lib/base/Math.hpp:12,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:20,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/_GLViewer.cpp:1:
/usr/include/boost/math/cstdfloat/cstdfloat_cmath.hpp:539:43: error: 'boost::math::cstdfloat::detail::float_internal128_t boost::math::cstdfloat::detail::abs(boost::math::cstdfloat::detail::float_internal128_t)' conflicts with a previous declaration
  539 | using boost::math::cstdfloat::detail::abs;
      | ^~~
In file included from /usr/include/c++/9/cstdlib:77,
                 from /usr/include/c++/9/stdlib.h:36,
                 from /usr/include/python3.6m/Python.h:34,
                 from /usr/include/boost/python/detail/wrap_python.hpp:151,
                 from /home/sacha.duverger/packages/yade/trunk/core/Omega.hpp:14,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/GLViewer.hpp:6,
                 from /home/sacha.duverger/packages/yade/trunk/gui/qt5/_GLViewer.cpp:1:
/usr/include/c++/9/bits/std_abs.h:103:3: note: previous declaration 'constexpr __float128 std::abs(__float128)'
  103 | abs(__float128 __x)
      | ^~~
gui/CMakeFiles/_GLViewer.dir/build.make:81: recipe for target 'gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o' failed
make[2]: *** [gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o] Error 1
make[2]: *** Waiting for unfinished jobs....
gui/CMakeFiles/_GLViewer.dir/build.make:94: recipe for target 'gui/CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o' failed
make[2]: *** [gui/CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o] Error 1
gui/CMakeFiles/_GLViewer.dir/build.make:107: recipe for target 'gui/CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o' failed
make[2]: *** [gui/CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o] Error 1
CMakeFiles/Makefile2:301: recipe for target 'gui/CMakeFiles/_GLViewer.dir/all' failed
make[1]: *** [gui/CMakeFiles/_GLViewer.dir/all] Error 2
py/CMakeFiles/_polyhedra_utils.dir/build.make:81: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o' failed
make[2]: *** [py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o] Error 1
CMakeFiles/Makefile2:410: recipe for target 'py/CMakeFiles/_polyhedra_utils.dir/all' failed
make[1]: *** [py/CMakeFiles/_polyhedra_utils.dir/all] Error 2
Makefile:148: recipe for target 'all' failed
make: *** [all] Error 2

Janek Kozicki (cosurgi) said : #10

So we are moving forward. Change file lib/high-precision/Real.hpp line 72 from:

#if (__GNUC__ > 7) or (not BOOST_GCC)

to

#if 0

let's see what happens.

Sacha Duverger (schmxprr) said : #11

After this change the compilation works with g++-9 (see [1] for the outputs) but YADE crashes upon starting as it did when compiled with g++-7. However the origin of the segmentation fault seems different, see [2] for the output of the gdb session.

Maybe the problem I had with g++-9 is not related to the segmentation fault ?

####################################################################################################################################################################################
[1] : Running cmake and make with : g++-9 , RealHP disabled and lib/high-precision/Real.hpp#72 forced to False

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=g++-9 -DCMAKE_C_COMPILER=gcc-9 -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc-9 - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++-9 - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=OFF. Logging will work nicely, backtraces will not have debug info, files will be small.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Warning: RealHP<N> higher precision types will use slow boost cpp_bin_float, consider passing cmake option ENABLE_MPFR=ON to fix this.
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:676 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:694 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath skipped
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK OpenMP GTS GUI-Qt5 CGAL FEMLIKE GL2PS PotentialParticles
-- Disabled features: RealHP mpmath MPFR PFVFLOW PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=5, ENABLE_LOGGER=ON
-- Optimized build
-- C++ standard version: 17
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make install output

Scanning dependencies of target _GLViewer_autogen
[ 0%] Automatic MOC for target _GLViewer
Scanning dependencies of target _packObb
Scanning dependencies of target _gts
[ 0%] Building CXX object py/CMakeFiles/_packObb.dir/pack/_packObb.cpp.o
[ 0%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o
Scanning dependencies of target _polyhedra_utils
[ 1%] Building CXX object py/CMakeFiles/_polyhedra_utils.dir/_polyhedra_utils.cpp.o
[ 1%] Built target _GLViewer_autogen
Scanning dependencies of target WeightedAverage2d
[ 1%] Building CXX object py/CMakeFiles/WeightedAverage2d.dir/WeightedAverage2d.cpp.o
[ 2%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/edge.cpp.o
[ 2%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/face.cpp.o
[ 3%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/object.cpp.o
[ 3%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/point.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/pygts.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/segment.cpp.o
[ 4%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/surface.cpp.o
[ 5%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/triangle.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:14:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
[ 5%] Building CXX object py/CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/vertex.cpp.o
[ 6%] Linking CXX shared library lib/x86_64-linux-gnu/_gts.so
[ 6%] Built target _gts
Scanning dependencies of target _GLViewer
[ 7%] Building CXX object gui/CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o
[ 8%] Linking CXX shared library lib/x86_64-linux-gnu/_packObb.so
[ 8%] Built target _packObb
[ 8%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o
[ 8%] Linking CXX shared library lib/x86_64-linux-gnu/WeightedAverage2d.so
[ 8%] Built target WeightedAverage2d
[ 9%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o
[ 9%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/OpenGLManager.cpp.o
[ 10%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewerDisplay.cpp.o
[ 10%] Building CXX object gui/CMakeFiles/_GLViewer.dir/qt5/GLViewerMouse.cpp.o
[ 10%] Linking CXX shared library lib/x86_64-linux-gnu/_polyhedra_utils.so
[ 10%] Built target _polyhedra_utils
[ 11%] Linking CXX shared library lib/x86_64-linux-gnu/_GLViewer.so
[ 11%] Built target _GLViewer
Scanning dependencies of target yade
[ 11%] Building CXX object CMakeFiles/yade.dir/core/Cell.cpp.o
[ 12%] Building CXX object CMakeFiles/yade.dir/core/Body.cpp.o
[ 12%] Building CXX object CMakeFiles/yade.dir/core/BodyContainer.cpp.o
[ 13%] Building CXX object CMakeFiles/yade.dir/core/Clump.cpp.o
[ 13%] Building CXX object CMakeFiles/yade.dir/core/Engine.cpp.o
[ 14%] Building CXX object CMakeFiles/yade.dir/core/FileGenerator.cpp.o
[ 14%] Building CXX object CMakeFiles/yade.dir/core/ForceContainerParallel.cpp.o
[ 14%] Building CXX object CMakeFiles/yade.dir/core/ForceContainerSerial.cpp.o
[ 15%] Building CXX object CMakeFiles/yade.dir/core/Interaction.cpp.o
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/home/sacha.duverger/packages/yade/trunk/core/InteractionContainer.cpp:82:2: warning: #warning ("is cpu cost of this mutex known?") [-Wcpp]
   82 | #warning("is cpu cost of this mutex known?")
      | ^~~~~~~
[ 16%] Building CXX object CMakeFiles/yade.dir/core/MPIBodyContainer.cpp.o
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[ 32%] Building CXX object CMakeFiles/yade.dir/pkg/dem/BlockGen.cpp.o
[ 33%] Building CXX object CMakeFiles/yade.dir/pkg/dem/BubbleMat.cpp.o
[ 33%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryPhys.cpp.o
[ 34%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryPhys1.cpp.o
[ 34%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CapillaryStressRecorder.cpp.o
[ 34%] Building CXX object CMakeFiles/yade.dir/pkg/dem/CohesiveFrictionalContactLaw.cpp.o
[ 35%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ConcretePM.cpp.o
[ 35%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Disp2DPropLoadEngine.cpp.o
[ 36%] Building CXX object CMakeFiles/yade.dir/pkg/dem/DomainLimiter.cpp.o
[ 36%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ElasticContactLaw.cpp.o
[ 37%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FacetTopologyAnalyzer.cpp.o
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[ 38%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ForceTorqueRecorder.cpp.o
[ 38%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FrictPhys.cpp.o
[ 38%] Building CXX object CMakeFiles/yade.dir/pkg/dem/FrictViscoPM.cpp.o
[ 39%] Building CXX object CMakeFiles/yade.dir/pkg/dem/GeneralIntegratorInsertionSortCollider.cpp.o
[ 39%] Building CXX object CMakeFiles/yade.dir/pkg/dem/GlobalStiffnessTimeStepper.cpp.o
[ 40%] Building CXX object CMakeFiles/yade.dir/pkg/dem/HertzMindlin.cpp.o
[ 40%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Box_Sphere_ScGeom.cpp.o
[ 41%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Facet_Sphere_ScGeom.cpp.o
In file included from /home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.cpp:3:
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp: In member function 'virtual void yade::Law2_ScGeom_MindlinPhys_Mindlin::pySetAttr(const string&, const boost::python::api::object&)':
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:2776: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
  160 | YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
      | ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:2892: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
  160 | YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
      | ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/HertzMindlin.hpp:160:3006: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
  160 | YADE_CLASS_BASE_DOC_ATTRS_INIT_CTOR_PY(Law2_ScGeom_MindlinPhys_Mindlin,LawFunctor,"Constitutive law for the Hertz-Mindlin formulation. It includes non linear elasticity in the normal direction as predicted by Hertz for two non-conforming elastic contact bodies. In the shear direction, instead, it reseambles the simplified case without slip discussed in Mindlin's paper, where a linear relationship between shear force and tangential displacement is provided. Finally, the Mohr-Coulomb criterion is employed to established the maximum friction force which can be developed at the contact. Moreover, it is also possible to include the effect of linear viscous damping through the definition of the parameters $\\beta_{n}$ and $\\beta_{s}$.",
      | ^
[ 41%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_PB_PB_ScGeom.cpp.o
[ 42%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_PP_PP_ScGeom.cpp.o
[ 42%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ig2_Sphere_Sphere_ScGeom.cpp.o
[ 42%] Building CXX object CMakeFiles/yade.dir/pkg/dem/InelastCohFrictPM.cpp.o
[ 43%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Integrator.cpp.o
[ 43%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Ip2_ElastMat.cpp.o
[ 44%] Building CXX object CMakeFiles/yade.dir/pkg/dem/JointedCohesiveFrictionalPM.cpp.o
[ 44%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KinemC__Engine.cpp.o
[ 45%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KinemSimpleShearBox.cpp.o
[ 45%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KnKsLaw.cpp.o
[ 46%] Building CXX object CMakeFiles/yade.dir/pkg/dem/KnKsPBLaw.cpp.o
[ 46%] Building CXX object CMakeFiles/yade.dir/pkg/dem/L3Geom.cpp.o
[ 46%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Law2_ScGeom_CapillaryPhys_Capillarity.cpp.o
[ 47%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Law2_ScGeom_CapillaryPhys_Capillarity1.cpp.o
[ 47%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Lubrication.cpp.o
[ 48%] Building CXX object CMakeFiles/yade.dir/pkg/dem/LubricationWithPotential.cpp.o
[ 48%] Building CXX object CMakeFiles/yade.dir/pkg/dem/LudingPM.cpp.o
[ 49%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MeasureCapStress.cpp.o
[ 49%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MicroMacroAnalyser.cpp.o
[ 50%] Building CXX object CMakeFiles/yade.dir/pkg/dem/MortarMat.cpp.o
[ 50%] Building CXX object CMakeFiles/yade.dir/pkg/dem/NewtonIntegrator.cpp.o
[ 50%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PDFEngine.cpp.o
[ 51%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PeriIsoCompressor.cpp.o
[ 51%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra.cpp.o
[ 52%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_Ig2.cpp.o
[ 52%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_splitter.cpp.o
[ 53%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Polyhedra_support.cpp.o
[ 53%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialBlock.cpp.o
[ 54%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialBlock2AABB.cpp.o
[ 54%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialParticle.cpp.o
[ 54%] Building CXX object CMakeFiles/yade.dir/pkg/dem/PotentialParticle2AABB.cpp.o
[ 55%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RockBolt.cpp.o
[ 55%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RockLiningGlobal.cpp.o
[ 56%] Building CXX object CMakeFiles/yade.dir/pkg/dem/RungeKuttaCashKarp54Integrator.cpp.o
[ 56%] Building CXX object CMakeFiles/yade.dir/pkg/dem/STLImporter.cpp.o
[ 57%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SampleCapillaryPressureEngine.cpp.o
[ 57%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ScGeom.cpp.o
[ 58%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Shop_01.cpp.o
[ 58%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Shop_02.cpp.o
[ 58%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SimpleShear.cpp.o
[ 59%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SnapshotEngine.cpp.o
[ 59%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SpherePack.cpp.o
[ 60%] Building CXX object CMakeFiles/yade.dir/pkg/dem/SpheresFactory.cpp.o
[ 60%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TesselationWrapper.cpp.o
[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Tetra.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /usr/include/python3.6m/numpy/ndarrayobject.h:18,
                 from /usr/include/python3.6m/numpy/arrayobject.h:4,
                 from /home/sacha.duverger/packages/yade/trunk/lib/pyutil/numpy_boost.hpp:45,
                 from /home/sacha.duverger/packages/yade/trunk/pkg/dem/TesselationWrapper.cpp:22:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ThreeDTriaxialEngine.cpp.o
[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialCompressionEngine.cpp.o
[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialStateRecorder.cpp.o
[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialStressController.cpp.o
[ 63%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialTest.cpp.o
[ 63%] Building CXX object CMakeFiles/yade.dir/pkg/dem/UnbalancedForceCallbacks.cpp.o
[ 64%] Building CXX object CMakeFiles/yade.dir/pkg/dem/UniaxialStrainer.cpp.o
[ 64%] Building CXX object CMakeFiles/yade.dir/pkg/dem/VTKRecorder.cpp.o
[ 65%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ViscoelasticCapillarPM.cpp.o
[ 65%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ViscoelasticPM.cpp.o
[ 66%] Building CXX object CMakeFiles/yade.dir/pkg/dem/WirePM.cpp.o
In file included from /home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.cpp:1:
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp: In member function 'virtual void yade::Law2_ScGeom_ViscElCapPhys_Basic::pySetAttr(const string&, const boost::python::api::object&)':
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp:89:1245: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
   89 | YADE_CLASS_BASE_DOC_ATTRS_CTOR_PY(Law2_ScGeom_ViscElCapPhys_Basic,LawFunctor,"Extended version of Linear viscoelastic model with capillary parameters.",
      | ^
/home/sacha.duverger/packages/yade/trunk/pkg/dem/ViscoelasticCapillarPM.hpp:89:1347: warning: '*((void*)&<anonymous> +32)' may be used uninitialized in this function [-Wmaybe-uninitialized]
   89 | YADE_CLASS_BASE_DOC_ATTRS_CTOR_PY(Law2_ScGeom_ViscElCapPhys_Basic,LawFunctor,"Extended version of Linear viscoelastic model with capillary parameters.",
      | ^
[ 66%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Bo1_DeformableElement_Aabb.cpp.o
[ 66%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Bo1_Node_Aabb.cpp.o
[ 67%] Building CXX object CMakeFiles/yade.dir/pkg/fem/CohesiveMat.cpp.o
[ 67%] Building CXX object CMakeFiles/yade.dir/pkg/fem/DeformableCohesiveElement.cpp.o
[ 68%] Building CXX object CMakeFiles/yade.dir/pkg/fem/DeformableElement.cpp.o
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[ 69%] Building CXX object CMakeFiles/yade.dir/pkg/fem/FEInternalForceEngine.cpp.o
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[ 71%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Lin4NodeTetra.cpp.o
[ 71%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Lin4NodeTetra_Lin4NodeTetra_InteractionElement.cpp.o
[ 72%] Building CXX object CMakeFiles/yade.dir/pkg/fem/LinElastMat.cpp.o
[ 72%] Building CXX object CMakeFiles/yade.dir/pkg/fem/Node.cpp.o
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[ 77%] Building CXX object CMakeFiles/yade.dir/pkg/pfv/TwoPhaseFlowEngine.cpp.o
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[ 78%] Building CXX object CMakeFiles/yade.dir/lib/base/Math.cpp.o
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[ 79%] Building CXX object CMakeFiles/yade.dir/lib/factory/ClassFactory.cpp.o
[ 79%] Building CXX object CMakeFiles/yade.dir/lib/factory/DynLibManager.cpp.o
[ 80%] Building CXX object CMakeFiles/yade.dir/lib/base/Logging.cpp.o
[ 80%] Building CXX object CMakeFiles/yade.dir/lib/compatibility/LapackCompatibility.cpp.o
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[ 81%] Building CXX object CMakeFiles/yade.dir/lib/serialization/Serializable.cpp.o
[ 82%] Building CXX object CMakeFiles/yade.dir/lib/pyutil/gil.cpp.o
[ 82%] Building CXX object CMakeFiles/yade.dir/core/main/pyboot.cpp.o
[ 82%] Building CXX object CMakeFiles/yade.dir/lib/opengl/GLUtils.cpp.o
[ 83%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/KinematicLocalisationAnalyser.cpp.o
[ 83%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/Tenseur3.cpp.o
[ 84%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/Timer.cpp.o
[ 84%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/TriaxialState.cpp.o
[ 85%] Building CXX object CMakeFiles/yade.dir/lib/triangulation/basicVTKwritter.cpp.o
[ 85%] Building CXX object CMakeFiles/yade.dir/lib/computational-geometry/MarchingCube.cpp.o
[ 86%] Linking CXX shared library lib/x86_64-linux-gnu/libyade.so
[ 86%] Built target yade
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[ 86%] Building CXX object py/CMakeFiles/_libVersions.dir/_libVersions.cpp.o
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[ 87%] Building CXX object CMakeFiles/boot.dir/core/main/pyboot.cpp.o
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[ 87%] Building CXX object py/CMakeFiles/_log.dir/_log.cpp.o
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[ 87%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_minieigenHP.cpp.o
[ 88%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeBoxes.cpp.o
[ 88%] Linking CXX shared library lib/x86_64-linux-gnu/boot.so
[ 89%] Linking CXX shared library lib/x86_64-linux-gnu/_log.so
[ 90%] Linking CXX shared library lib/x86_64-linux-gnu/_libVersions.so
[ 90%] Built target boot
[ 90%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeComplex1.cpp.o
[ 90%] Built target _log
[ 91%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeComplex2.cpp.o
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[ 91%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeConverters.cpp.o
Scanning dependencies of target _packPredicates
[ 91%] Building CXX object py/CMakeFiles/_packPredicates.dir/pack/_packPredicates.cpp.o
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[ 94%] Building CXX object py/CMakeFiles/_packSpheres.dir/pack/_packSpheres.cpp.o
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /usr/include/python3.6m/numpy/ndarrayobject.h:18,
                 from /usr/include/python3.6m/numpy/arrayobject.h:4,
                 from /home/sacha.duverger/packages/yade/trunk/py/_utils.cpp:8:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
[ 94%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeMatrices2.cpp.o
[ 95%] Linking CXX shared library lib/x86_64-linux-gnu/_math.so
[ 95%] Linking CXX shared library lib/x86_64-linux-gnu/_packSpheres.so
[ 95%] Built target _math
[ 95%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeQuaternion.cpp.o
[ 95%] Built target _packSpheres
[ 96%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeStorageOrdering.cpp.o
Scanning dependencies of target wrapper
[ 96%] Building CXX object py/CMakeFiles/wrapper.dir/wrapper/yadeWrapper.cpp.o
Scanning dependencies of target _customConverters
[ 96%] Building CXX object py/CMakeFiles/_customConverters.dir/wrapper/customConverters.cpp.o
[ 96%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeVectors1.cpp.o
[ 97%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_ExposeVectors2.cpp.o
[ 97%] Building CXX object py/CMakeFiles/_minieigenHP.dir/high-precision/_RealHPDiagnostics.cpp.o
[ 97%] Linking CXX shared library lib/x86_64-linux-gnu/_utils.so
[ 97%] Built target _utils
[ 98%] Linking CXX shared library lib/x86_64-linux-gnu/_minieigenHP.so
[ 98%] Built target _minieigenHP
[ 99%] Linking CXX shared library lib/x86_64-linux-gnu/_customConverters.so
[ 99%] Built target _customConverters
[100%] Linking CXX shared library lib/x86_64-linux-gnu/wrapper.so
[100%] Built target wrapper
Install the project...
-- Install configuration: "Release"
-- Installing: /home/sacha.duverger/packages/yade/install/bin/yade-2020-10-20.git-427f64c-batch
-- Installing: /home/sacha.duverger/packages/yade/install/bin/yade-2020-10-20.git-427f64c
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/config.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/libVersions.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/DEM-PFV-check.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkAvoidSelfInteractionMask.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkBlockGen.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkCapillaryModels.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkClumpHopper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkColliderConstantness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkColliderCorrectness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkDEM-PFVPressureInjection.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkGravity.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkJCFpm.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLiquidMigration.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkList.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLubrication.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkLubricationWithRoughness.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkMPI.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPolyhedraCrush.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialBlocks.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialParticles.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkPotentialVTKRecorders.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkSaveLoadClumps.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkTestDummy.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkTestTriax.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkVTKRecorder.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElEng.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElPM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkViscElPM2.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkWeight.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/checkWirePM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/check_TwoPhaseFlowEngine_PressureInjection.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGui.sh
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGuiEmpty.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/gui/testGuiSimple.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/testGuiHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkColider.txt
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.1/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkJCFpm.spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_8.2/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/ppvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver8.2/pp-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbId.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pb-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pbvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppcontactPoint.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/ppvel.10.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/potentialVTKRecorders/ver6-8.1/pp-pb.10.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkTestTriax.spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/100spheres
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/checkColliderCorrect.txt
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/WallStressesCheckTest
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/joints.csv
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_0.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_1.vtu
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10/10_2.vtp
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/data/vtk_reference_6/10.vtm
-- Installing: /home/sacha.duverger/packages/yade/install/share/doc/yade-2020-10-20.git-427f64c/img/yade-logo-note.png
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/math.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/minieigenHP.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/testMathHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/boot.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/boot.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/libyade.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/libyade.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/Inspector.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/SerializableEditor.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/img_rc.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/ui_controller.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/_GLViewer.so
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/Inspector.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/SerializableEditor.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/__init__.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/img_rc.py
-- Up-to-date: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt/ui_controller.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/pygts.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/_gts.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts/_gts.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_extraDocs.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/bisectionDecomposition.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/bodiesHandling.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/coloring.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/deformableelementsutils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/domaindecomposition.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/export.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/geom.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/gridpfacet.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/linterpolation.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/log.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/mpy.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/params.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/plot.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/polyhedra_utils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/post2d.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/remote.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/runtime.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/system.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/timing.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/utils.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/ymport.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/pack.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/mtTkinter.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/__init__.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/clump.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/cohesive-chain.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/core.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/dummyTest.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/engines.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/enumTest.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/libVersions.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/pbc.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testColliderByGiulia.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMath.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMathHelper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/testMinieigenHP.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/utilsModule.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/wrapper.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/performance/checkPerf.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/tests/checks/performance/performance.db
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/mpipool.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEM2D.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEM3D.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/msFEMup.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/saveGauss.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/FEMxDEM/simDEM.py
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_libVersions.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_libVersions.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_log.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_log.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_math.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_math.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_minieigenHP.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_minieigenHP.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/WeightedAverage2d.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/WeightedAverage2d.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_utils.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_utils.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_polyhedra_utils.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_polyhedra_utils.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packPredicates.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packPredicates.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packSpheres.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packSpheres.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packObb.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_packObb.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/wrapper.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/wrapper.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"
-- Installing: /home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_customConverters.so
-- Set runtime path of "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/_customConverters.so" to "/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/yade/qt:/home/sacha.duverger/packages/yade/install/lib/x86_64-linux-gnu/yade-2020-10-20.git-427f64c/py/gts:/usr/local/lib"

####################################################################################################################################################################################
[2] : Using gdb to investigate the segmentation fault

## gdb session

GNU gdb (Ubuntu 8.2-0ubuntu1~18.04) 8.2
Copyright (C) 2018 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
Type "show copying" and "show warranty" for details.
This GDB was configured as "x86_64-linux-gnu".
Type "show configuration" for configuration details.
For bug reporting instructions, please see:
<http://www.gnu.org/software/gdb/bugs/>.
Find the GDB manual and other documentation resources online at:
    <http://www.gnu.org/software/gdb/documentation/>.

For help, type "help".
Type "apropos word" to search for commands related to "word".
(gdb) file python3
Reading symbols from python3...(no debugging symbols found)...done.
(gdb) run install/bin/yade-2020-10-20.git-427f64c
Starting program: /usr/bin/python3 install/bin/yade-2020-10-20.git-427f64c
[Thread debugging using libthread_db enabled]
Using host libthread_db library "/lib/x86_64-linux-gnu/libthread_db.so.1".
Welcome to Yade 2020-10-20.git-427f64c
Using python version: 3.6.9 (default, Oct 8 2020, 12:12:24)
[GCC 8.4.0]

Program received signal SIGSEGV, Segmentation fault.
0x00007fffe10e32b9 in GlobalError::PushToStack() () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
(gdb) bt
#0 0x00007fffe10e32b9 in GlobalError::PushToStack() () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#1 0x00007fffe1166fc2 in pkgInitConfig(Configuration&) () from /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0
#2 0x00007fffe1404ed8 in ?? () from /usr/lib/python3/dist-packages/apt_pkg.cpython-36m-x86_64-linux-gnu.so
#3 0x000000000050a12f in ?? ()
#4 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#5 0x0000000000507be4 in ?? ()
#6 0x0000000000516069 in ?? ()
#7 0x0000000000566fae in PyCFunction_Call ()
#8 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#9 0x0000000000507be4 in ?? ()
#10 0x0000000000509900 in ?? ()
#11 0x000000000050a2fd in ?? ()
#12 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#13 0x00000000005095c8 in ?? ()
#14 0x000000000050a2fd in ?? ()
#15 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#16 0x00000000005095c8 in ?? ()
#17 0x000000000050a2fd in ?? ()
#18 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#19 0x00000000005095c8 in ?? ()
#20 0x000000000050a2fd in ?? ()
#21 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
#22 0x0000000000508cd5 in _PyFunction_FastCallDict ()
#23 0x00000000005a4c61 in _PyObject_FastCallDict ()
#24 0x00000000005a5c9e in _PyObject_CallMethodIdObjArgs ()
#25 0x00000000004f6d6d in PyImport_ImportModuleLevelObject ()
#26 0x000000000050ddbf in _PyEval_EvalFrameDefault ()
#27 0x0000000000507be4 in ?? ()
#28 0x0000000000516069 in ?? ()
#29 0x0000000000566fae in PyCFunction_Call ()
#30 0x0000000000510e51 in _PyEval_EvalFrameDefault ()
#31 0x0000000000507be4 in ?? ()
#32 0x0000000000509900 in ?? ()
#33 0x000000000050a2fd in ?? ()
#34 0x000000000050beb4 in _PyEval_EvalFrameDefault ()
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Janek Kozicki (cosurgi) said : #12

Now this looks like a binary conflict between versions of some libraries. Maybe we will find out what are the offending libraries when you compile with cmake -DDEBUG=ON and see gdb output.

Janek Kozicki (cosurgi) said : #13

Also add -DMAX_LOG_LEVEL=6 to cmake. And when you start gdb session invoke yade -f6, so that we get more debug info.

Sacha Duverger (schmxprr) said : #14

Here are the outputs :

####################################################################################################################################################################################
[1] : Running cmake and make with : g++-9 , RealHP disabled and lib/high-precision/Real.hpp#72 forced to False, debug on

## cmake command

cmake -DENABLE_GUI=ON -DENABLE_MPI=OFF -DENABLE_PFVFLOW=OFF -DENABLE_TWOPHASEFLOW=OFF -DENABLE_LBMFLOW=OFF -DENABLE_POTENTIAL_BLOCKS=OFF -DCMAKE_CXX_COMPILER=g++-9 -DCMAKE_C_COMPILER=gcc-9 -DDEBUG=ON -DMAX_LOG_LEVEL=6 -DCMAKE_INSTALL_PREFIX=../install ../trunk

## cmake output

-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc-9 - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++-9 - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Version is set to 2020-10-20.git-427f64c
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Log filtering: enabled
-- Enabling boost::log library and DEBUG=ON. Files will be very large with full debug info inside.
Loop on the following python versions and check available dependencies:3.8;3.7;3.6;3.5;3.4;3.3;3.2;3.1;3.0;2.7;2.6
-- Found PythonInterp: /usr/bin/python (found version "2.7.17")
-- Found PythonInterp: /usr/bin/python3.6 (found version "3.6.9")
Python version 3.6.9 found, try to import dependencies...
-- Found NumPy: version "1.18.4" /home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include
-- Found IPython: /usr/lib/python3/dist-packages/IPython
-- Found matplotlib: /home/sacha.duverger/.local/lib/python3.6/site-packages/matplotlib
-- Found pygraphviz: /usr/lib/python3/dist-packages/pygraphviz
-- Found Xlib: /usr/lib/python3/dist-packages/Xlib
-- Found future: /usr/lib/python3/dist-packages/future
-- Found past: /usr/lib/python3/dist-packages/past
-- Found tkinter: /usr/lib/python3.6/tkinter
-- Boost_VERSION: 106501
-- Boost_LIB_VERSION: 1_65_1
-- Boost_INCLUDE_DIRS: /usr/include
-- Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so/usr/lib/x86_64-linux-gnu/libboost_thread.so-lpthread/usr/lib/x86_64-linux-gnu/libboost_filesystem.so/usr/lib/x86_64-linux-gnu/libboost_iostreams.so/usr/lib/x86_64-linux-gnu/libboost_regex.so/usr/lib/x86_64-linux-gnu/libboost_serialization.so/usr/lib/x86_64-linux-gnu/libboost_system.so/usr/lib/x86_64-linux-gnu/libboost_date_time.so/usr/lib/x86_64-linux-gnu/libboost_log.so/usr/lib/x86_64-linux-gnu/libboost_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libboost_log_setup.so
Found all python dependencies with version 3.6.9, will compile yade with that.
-- Chosen compiler flags are: CMAKE_CXX_FLAGS = -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong
-- Determining preferred precision of Real numbers
-- Will now try to find python-mpmath using /usr/bin/python3.6
-- Warning: RealHP<N> higher precision types will use slow boost cpp_bin_float, consider passing cmake option ENABLE_MPFR=ON to fix this.
-- mpfr disabled
-- Will use PrecisionDouble as Real type with 15 decimal places precision and use 64 bits of storage.
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11")
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOParallelXML' component is 'IOParallelXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkCommonCore' component is 'CommonCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOImage' component is 'IOImage'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkIOXML' component is 'IOXML'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkFiltersCore' component is 'FiltersCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingCore' component is 'ImagingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkRenderingCore' component is 'RenderingCore'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingGeneral' component is 'ImagingGeneral'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-config.cmake:71 (message):
  The new name for the 'vtkImagingHybrid' component is 'ImagingHybrid'
Call Stack (most recent call first):
  CMakeLists.txt:643 (FIND_PACKAGE)

-- Found Threads: TRUE
-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindPackageHandleStandardArgs.cmake:273 (message):
  The package name passed to `find_package_handle_standard_args` (PkgConfig)
  does not match the name of the calling package (glib2). This can lead to
  problems in calling code that expects `find_package` result variables
  (e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
  /usr/share/cmake-3.18/Modules/FindPkgConfig.cmake:59 (find_package_handle_standard_args)
  cMake/Findglib2.cmake:30 (INCLUDE)
  CMakeLists.txt:676 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1")
-- Checking for one of the modules 'glib-2.0'
-- Found GLib2: glib-2.0 /usr/include/glib-2.0;/usr/lib/x86_64-linux-gnu/glib-2.0/include
-- Looking for include file glib/gregex.h
-- Looking for include file glib/gregex.h - not found
-- Found GTS
CMake Warning (dev) at /usr/share/cmake-3.18/Modules/FindOpenGL.cmake:305 (message):
  Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
  available. Run "cmake --help-policy CMP0072" for policy details. Use the
  cmake_policy command to set the policy and suppress this warning.

  FindOpenGL found both a legacy GL library:

    OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so

  and GLVND libraries for OpenGL and GLX:

    OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so

  OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
  compatibility with CMake 3.10 and below the legacy GL library will be used.
Call Stack (most recent call first):
  CMakeLists.txt:694 (FIND_PACKAGE)
This warning is for project developers. Use -Wno-dev to suppress it.

-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
-- Found GLUT: /usr/lib/x86_64-linux-gnu/libglut.so
-- USE QT5
-- Found QGLVIEWER-qt5: /usr/include/QGLViewer
-- Found GUI-Qt5-LIBS
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found GMP: /usr/include/x86_64-linux-gnu
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so
-- Found GL2PS
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- BLAS_INCLUDE_DIR=/usr/include/x86_64-linux-gnu
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found OpenBlas
-- Found Lapack
-- md5sum of freegult /usr/include/GL/freeglut_std.h is: 791a2febd8584ec530cdd7676191b6d5
-- freegult version is 2.8.1
Yade will be installed to /home/sacha.duverger/packages/yade/install
-- Suffix is set to -2020-10-20.git-427f64c
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/sacha.duverger/packages/yade/install
-- Could NOT find gts (missing: PY_gts)
-- Use embedded version of gts. Please, consider installing the corresponding package
-- linking -lquadmath skipped
-- VTK version >7 is found
-- ===========================================================
-- Yade configured with following features: BoostLog PrecisionDouble Odeint VTK OpenMP GTS GUI-Qt5 CGAL FEMLIKE GL2PS PotentialParticles
-- Disabled features: RealHP mpmath MPFR PFVFLOW PFVFLOW LINSOLV MPI TWOPHASEFLOW SPH DEFORM LIQMIGRATION LBMFLOW MASK_ARBITRARY THERMAL PARTIALSAT PROFILING PotentialBlocks
-- Using MAX_LOG_LEVEL=6, ENABLE_LOGGER=ON
-- Debug build
-- C++ standard version: 17
-- ===========================================================
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sacha.duverger/packages/yade/build

## make install output

/usr/bin/cmake -S/home/sacha.duverger/packages/yade/trunk -B/home/sacha.duverger/packages/yade/build --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /home/sacha.duverger/packages/yade/build/CMakeFiles /home/sacha.duverger/packages/yade/build//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[1]: Entering directory '/home/sacha.duverger/packages/yade/build'
make -f gui/CMakeFiles/_GLViewer_autogen.dir/build.make gui/CMakeFiles/_GLViewer_autogen.dir/depend
make -f py/CMakeFiles/_gts.dir/build.make py/CMakeFiles/_gts.dir/depend
make -f py/CMakeFiles/_polyhedra_utils.dir/build.make py/CMakeFiles/_polyhedra_utils.dir/depend
make -f py/CMakeFiles/_packObb.dir/build.make py/CMakeFiles/_packObb.dir/depend
make[2]: Entering directory '/home/sacha.duverger/packages/yade/build'
cd /home/sacha.duverger/packages/yade/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /home/sacha.duverger/packages/yade/trunk /home/sacha.duverger/packages/yade/trunk/gui /home/sacha.duverger/packages/yade/build /home/sacha.duverger/packages/yade/build/gui /home/sacha.duverger/packages/yade/build/gui/CMakeFiles/_GLViewer_autogen.dir/DependInfo.cmake --color=
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cd /home/sacha.duverger/packages/yade/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /home/sacha.duverger/packages/yade/trunk /home/sacha.duverger/packages/yade/trunk/py /home/sacha.duverger/packages/yade/build /home/sacha.duverger/packages/yade/build/py /home/sacha.duverger/packages/yade/build/py/CMakeFiles/_polyhedra_utils.dir/DependInfo.cmake --color=
make[2]: Entering directory '/home/sacha.duverger/packages/yade/build'
cd /home/sacha.duverger/packages/yade/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /home/sacha.duverger/packages/yade/trunk /home/sacha.duverger/packages/yade/trunk/py /home/sacha.duverger/packages/yade/build /home/sacha.duverger/packages/yade/build/py /home/sacha.duverger/packages/yade/build/py/CMakeFiles/_gts.dir/DependInfo.cmake --color=
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cd /home/sacha.duverger/packages/yade/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /home/sacha.duverger/packages/yade/trunk /home/sacha.duverger/packages/yade/trunk/py /home/sacha.duverger/packages/yade/build /home/sacha.duverger/packages/yade/build/py /home/sacha.duverger/packages/yade/build/py/CMakeFiles/_packObb.dir/DependInfo.cmake --color=
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make[2]: Entering directory '/home/sacha.duverger/packages/yade/build'
[ 0%] Automatic MOC for target _GLViewer
cd /home/sacha.duverger/packages/yade/build/gui && /usr/bin/cmake -E cmake_autogen /home/sacha.duverger/packages/yade/build/gui/CMakeFiles/_GLViewer_autogen.dir/AutogenInfo.json Debug
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cd /home/sacha.duverger/packages/yade/build/py && /usr/bin/g++-9 -DBOOST_LOG_DYN_LINK -DMAX_LOG_LEVEL=6 -DYADE_BOOST_LOG -DYADE_DEBUG -DYADE_DISABLE_REAL_MULTI_HP -DYADE_FEM -DYADE_ODEINT -DYADE_POTENTIAL_PARTICLES -DYADE_REAL_BIT=64 -DYADE_REAL_DEC=15 -D_gts_EXPORTS -I/home/sacha.duverger/packages/yade/trunk -I/usr/include/python3.6m -I/home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include -I/usr/include/eigen3 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/home/sacha.duverger/packages/yade/build -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -fPIC -ftrack-macro-expansion=0 -save-temps -DEIGEN_DONT_VECTORIZE -DEIGEN_DONT_ALIGN -DEIGEN_DISABLE_UNALIGNED_ARRAY_ASSERT -DCGAL_DISABLE_ROUNDING_MATH_CHECK -frounding-math -std=gnu++17 -o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o -c /home/sacha.duverger/packages/yade/trunk/py/3rd-party/pygts-0.3.1/cleanup.cpp
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cd /home/sacha.duverger/packages/yade/build/py && /usr/bin/g++-9 -DBOOST_LOG_DYN_LINK -DMAX_LOG_LEVEL=6 -DYADE_BOOST_LOG -DYADE_DEBUG -DYADE_DISABLE_REAL_MULTI_HP -DYADE_FEM -DYADE_ODEINT -DYADE_POTENTIAL_PARTICLES -DYADE_REAL_BIT=64 -DYADE_REAL_DEC=15 -D_gts_EXPORTS -I/home/sacha.duverger/packages/yade/trunk -I/usr/include/python3.6m -I/home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include -I/usr/include/eigen3 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/home/sacha.duverger/packages/yade/build -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -fPIC -ftrack-macro-expansion=0 -save-temps -DEIGEN_DONT_VECTORIZE -DEIGEN_DONT_ALIGN -DEIGEN_DISABLE_UNALIGNED_ARRAY_ASSERT -DCGAL_DISABLE_ROUNDING_MATH_CHECK -frounding-math -std=gnu++17 -o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/vertex.cpp.o -c /home/sacha.duverger/packages/yade/trunk/py/3rd-party/pygts-0.3.1/vertex.cpp
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/usr/bin/g++-9 -fPIC -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -shared -Wl,-soname,_gts.so -o lib/x86_64-linux-gnu/_gts.so CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/cleanup.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/edge.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/face.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/object.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/point.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/pygts.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/segment.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/surface.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/triangle.cpp.o CMakeFiles/_gts.dir/3rd-party/pygts-0.3.1/vertex.cpp.o -Wl,-rpath,::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: -lgts
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In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /home/sacha.duverger/packages/yade/trunk/py/_polyhedra_utils.cpp:14:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
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/usr/bin/g++-9 -fPIC -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -shared -Wl,-soname,WeightedAverage2d.so -o lib/x86_64-linux-gnu/WeightedAverage2d.so CMakeFiles/WeightedAverage2d.dir/WeightedAverage2d.cpp.o -Wl,-rpath,:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
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cd /home/sacha.duverger/packages/yade/build/gui && /usr/bin/g++-9 -DBOOST_LOG_DYN_LINK -DMAX_LOG_LEVEL=6 -DQT_CORE_LIB -DQT_GUI_LIB -DQT_OPENGL_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DYADE_BOOST_LOG -DYADE_DEBUG -DYADE_DISABLE_REAL_MULTI_HP -DYADE_FEM -DYADE_ODEINT -DYADE_POTENTIAL_PARTICLES -DYADE_REAL_BIT=64 -DYADE_REAL_DEC=15 -D_GLViewer_EXPORTS -I/home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/include -I/home/sacha.duverger/packages/yade/trunk -I/usr/include/python3.6m -I/home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include -I/usr/include/eigen3 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/home/sacha.duverger/packages/yade/build -I/usr/include/QGLViewer -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -fPIC -ftrack-macro-expansion=0 -save-temps -DEIGEN_DONT_VECTORIZE -DEIGEN_DONT_ALIGN -DEIGEN_DISABLE_UNALIGNED_ARRAY_ASSERT -DCGAL_DISABLE_ROUNDING_MATH_CHECK -frounding-math -fPIC -std=gnu++17 -o CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o -c /home/sacha.duverger/packages/yade/trunk/gui/qt5/_GLViewer.cpp
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cd /home/sacha.duverger/packages/yade/build/gui && /usr/bin/g++-9 -DBOOST_LOG_DYN_LINK -DMAX_LOG_LEVEL=6 -DQT_CORE_LIB -DQT_GUI_LIB -DQT_OPENGL_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DYADE_BOOST_LOG -DYADE_DEBUG -DYADE_DISABLE_REAL_MULTI_HP -DYADE_FEM -DYADE_ODEINT -DYADE_POTENTIAL_PARTICLES -DYADE_REAL_BIT=64 -DYADE_REAL_DEC=15 -D_GLViewer_EXPORTS -I/home/sacha.duverger/packages/yade/build/gui/_GLViewer_autogen/include -I/home/sacha.duverger/packages/yade/trunk -I/usr/include/python3.6m -I/home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include -I/usr/include/eigen3 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/home/sacha.duverger/packages/yade/build -I/usr/include/QGLViewer -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -fPIC -ftrack-macro-expansion=0 -save-temps -DEIGEN_DONT_VECTORIZE -DEIGEN_DONT_ALIGN -DEIGEN_DISABLE_UNALIGNED_ARRAY_ASSERT -DCGAL_DISABLE_ROUNDING_MATH_CHECK -frounding-math -fPIC -std=gnu++17 -o CMakeFiles/_GLViewer.dir/qt5/OpenGLManager.cpp.o -c /home/sacha.duverger/packages/yade/trunk/gui/qt5/OpenGLManager.cpp
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/usr/bin/g++-9 -fPIC -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -shared -Wl,-soname,_GLViewer.so -o lib/x86_64-linux-gnu/_GLViewer.so CMakeFiles/_GLViewer.dir/_GLViewer_autogen/mocs_compilation.cpp.o CMakeFiles/_GLViewer.dir/qt5/GLViewer.cpp.o CMakeFiles/_GLViewer.dir/qt5/_GLViewer.cpp.o CMakeFiles/_GLViewer.dir/qt5/OpenGLManager.cpp.o CMakeFiles/_GLViewer.dir/qt5/GLViewerDisplay.cpp.o CMakeFiles/_GLViewer.dir/qt5/GLViewerMouse.cpp.o -Wl,-rpath,::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: /usr/lib/x86_64-linux-gnu/libglut.so /usr/lib/x86_64-linux-gnu/libXmu.so /usr/lib/x86_64-linux-gnu/libXi.so /usr/lib/x86_64-linux-gnu/libGL.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libQGLViewer-qt5.so /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libboost_serialization.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_log.so /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so /usr/lib/x86_64-linux-gnu/libboost_log_setup.so /usr/lib/x86_64-linux-gnu/libpython3.6m.so /usr/lib/x86_64-linux-gnu/libgl2ps.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.9.5 /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so.5.9.5 /usr/lib/x86_64-linux-gnu/libglut.so /usr/lib/x86_64-linux-gnu/libXmu.so /usr/lib/x86_64-linux-gnu/libXi.so /usr/lib/x86_64-linux-gnu/libGL.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libQGLViewer-qt5.so /usr/lib/x86_64-linux-gnu/libboost_python3-py36.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libboost_serialization.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_log.so /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so /usr/lib/x86_64-linux-gnu/libboost_log_setup.so /usr/lib/x86_64-linux-gnu/libpython3.6m.so /usr/lib/x86_64-linux-gnu/libgl2ps.so /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.9.5 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.9.5 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.9.5
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   82 | #warning("is cpu cost of this mutex known?")
      | ^~~~~~~
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[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/dem/Tetra.cpp.o
/usr/bin/g++-9 -DBOOST_LOG_DYN_LINK -DMAX_LOG_LEVEL=6 -DQT_CORE_LIB -DQT_GUI_LIB -DQT_OPENGL_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DYADE_BOOST_LOG -DYADE_DEBUG -DYADE_DISABLE_REAL_MULTI_HP -DYADE_FEM -DYADE_ODEINT -DYADE_POTENTIAL_PARTICLES -DYADE_REAL_BIT=64 -DYADE_REAL_DEC=15 -DYADE_VTK6 -DYADE_VTK8 -Dyade_EXPORTS -I/home/sacha.duverger/packages/yade/trunk -I/usr/include/python3.6m -I/home/sacha.duverger/.local/lib/python3.6/site-packages/numpy/core/include -I/usr/include/eigen3 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/home/sacha.duverger/packages/yade/build -I/home/sacha.duverger/packages/yade/build/pkg/pfv -isystem /usr/local/include/vtk-9.0 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -Werror -Wformat -Wformat-security -Wformat-nonliteral -Wall -Wextra -Wnarrowing -Wreturn-type -Wuninitialized -Wfloat-conversion -Wcast-align -Wdisabled-optimization -Wtrampolines -Wpointer-arith -Wswitch-bool -Wwrite-strings -Wnon-virtual-dtor -Wreturn-local-addr -Wno-error=maybe-uninitialized -Wno-comment -Wno-cast-function-type -Wno-deprecated-copy -Wno-error=cpp -fdce -fstack-protector-strong -DYADE_VTK -DYADE_OPENMP -fopenmp -DYADE_GTS -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include -DQGLVIEWER_FOUND -DYADE_OPENGL -DYADE_QT5 -DYADE_CGAL -DYADE_GL2PS -g -fPIC -ftrack-macro-expansion=0 -save-temps -DEIGEN_DONT_VECTORIZE -DEIGEN_DONT_ALIGN -DEIGEN_DISABLE_UNALIGNED_ARRAY_ASSERT -DCGAL_DISABLE_ROUNDING_MATH_CHECK -frounding-math -fPIC -std=gnu++17 -o CMakeFiles/yade.dir/pkg/dem/Tetra.cpp.o -c /home/sacha.duverger/packages/yade/trunk/pkg/dem/Tetra.cpp
In file included from /usr/include/python3.6m/numpy/ndarraytypes.h:1809,
                 from /usr/include/python3.6m/numpy/ndarrayobject.h:18,
                 from /usr/include/python3.6m/numpy/arrayobject.h:4,
                 from /home/sacha.duverger/packages/yade/trunk/lib/pyutil/numpy_boost.hpp:45,
                 from /home/sacha.duverger/packages/yade/trunk/pkg/dem/TesselationWrapper.cpp:22:
/usr/include/python3.6m/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   15 | #warning "Using deprecated NumPy API, disable it by " \
      | ^~~~~~~
[ 61%] Building CXX object CMakeFiles/yade.dir/pkg/dem/ThreeDTriaxialEngine.cpp.o
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[ 62%] Building CXX object CMakeFiles/yade.dir/pkg/dem/TriaxialCompressionEngine.cpp.o
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