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["Hien N.G. NGUYEN" <question691645@xxxxxxxxxxxxxxxxxxxxx>]

Question #691645 on Yade changed:
https://answers.launchpad.net/yade/+question/691645

    Status: Needs information => Open

Hien N.G. NGUYEN gave more information on the question:
Just to clarify, the flag I turned on for the compilation is
CHOLMOD_GPU, which is not related to this issue, my bad.

Below is the cmake command and the cmake command output of YADE-2019.01a
on my PC

cmake -DCMAKE_INSTALL_PREFIX=/home/AD/nguyen39/Programmes/YADE2019/install /home/AD/nguyen39/Programmes/YADE2019/trunk -DCHOLMOD_GPU=ON -DSUITESPARSEPATH=/usr/local/SuiteSparse-5.7.2
-- The C compiler identification is GNU 7.5.0
-- The CXX compiler identification is GNU 7.5.0
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found PythonInterp: /usr/bin/python (found version "2.7.17") 
-- Found OpenMP_C: -fopenmp (found version "4.5") 
-- Found OpenMP_CXX: -fopenmp (found version "4.5") 
-- Found OpenMP: TRUE (found version "4.5")  
qmake: could not exec '/usr/lib/x86_64-linux-gnu/qt4/bin/qmake': No such file or directory
-- Found unsuitable Qt version "" from NOTFOUND
-- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.1") 
-- Version is set to 2019.01a
-- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so   
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
-- Found GL2PS: /usr/lib/x86_64-linux-gnu/libgl2ps.so  
-- Found CGAL: /usr/include, /usr/lib/x86_64-linux-gnu/libCGAL.so
-- Found NumPy: version "1.13.3" /usr/lib/python2.7/dist-packages/numpy/core/include
-- Found Loki: /usr/include  
-- GCC Version >= 4.8. Adding -ftrack-macro-expansion=0
-- GCC Version >= 4.8. Adding -save-temps
-- GCC Version >= 4.9. Adding -fstack-protector-strong
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Boost version: 1.65.1
-- Found the following Boost libraries:
--   python
--   thread
--   filesystem
--   iostreams
--   regex
--   serialization
--   system
--   date_time
--   chrono
--   atomic
--   Boost_VERSION: 106501
--   Boost_LIB_VERSION: 1_65_1
--   Boost_INCLUDE_DIRS: /usr/include
--   Boost_LIBRARIES: /usr/lib/x86_64-linux-gnu/libboost_python.so/usr/lib/x86_64-linux-gnu/libboost_thread.so/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_chrono.so/usr/lib/x86_64-linux-gnu/libboost_atomic.so/usr/lib/x86_64-linux-gnu/libpthread.so
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") 
-- 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 PythonLibs: /usr/lib/x86_64-linux-gnu/libpython2.7.so (found version "2.7.17") 
-- Found Eigen3, version: 3.3.4
-- Disable vectorization
-- The imported target "vtkRenderingPythonTkWidgets" references the file
   "/usr/lib/x86_64-linux-gnu/libvtkRenderingPythonTkWidgets.so"
but this file does not exist.  Possible reasons include:
* The file was deleted, renamed, or moved to another location.
* An install or uninstall procedure did not complete successfully.
* The installation package was faulty and contained
   "/usr/lib/cmake/vtk-6.3/VTKTargets.cmake"
but not all the files it references.

-- The imported target "vtk" references the file
   "/usr/bin/vtk"
but this file does not exist.  Possible reasons include:
* The file was deleted, renamed, or moved to another location.
* An install or uninstall procedure did not complete successfully.
* The installation package was faulty and contained
   "/usr/lib/cmake/vtk-6.3/VTKTargets.cmake"
but not all the files it references.

-- Found VTK
-- Found OpenMP_C: -fopenmp (found version "4.5") 
-- Found OpenMP_CXX: -fopenmp (found version "4.5") 
-- Found OpenMP
-- GTS using gts-config /usr/bin/gts-config
-- Using GTS from /usr
-- 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
-- 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  
-- GMP libs: /usr/lib/x86_64-linux-gnu/libgmp.so /usr/lib/x86_64-linux-gnu/libgmpxx.so
-- Found CGAL
-- SuiteSparse version 5.1.2 found, CHOLMOD direct solver for CPU activated.
-- Found Cholmod: /usr/lib/x86_64-linux-gnu/libcholmod.so  
-- Found OpenBlas: /usr/lib/x86_64-linux-gnu/libopenblas.so  
-- Found Metis: /usr/include  
-- Found Cholmod in /usr/lib/x86_64-linux-gnu/libcholmod.so
-- Found OpenBlas in /usr/lib/x86_64-linux-gnu/libopenblas.so
-- Found Metis in /usr/lib/x86_64-linux-gnu/libmetis.so
-- Found CuBlas: /usr/lib/x86_64-linux-gnu/libcublas.so  
-- Found Lapack: /usr/lib/x86_64-linux-gnu/liblapack.so  
-- Found CuBlas in /usr/lib/x86_64-linux-gnu/libcublas.so
-- Found Lapack in /usr/lib/x86_64-linux-gnu/liblapack.so
-- Found GL2PS
LBMFLOW is still experimental, building and running LBM engine are at your own risk!
Yade will be installed to /home/AD/nguyen39/Programmes/YADE2019/install
-- Suffix is set to -2019.01a
-- LIBRARY_OUTPUT_PATH is set to lib/x86_64-linux-gnu
-- runtimePREFIX is set to /home/AD/nguyen39/Programmes/YADE2019/install
-- Found gts: /usr/lib/python2.7/dist-packages/gts  
-- Use system gts version
-- Found minieigen: /usr/lib/python2.7/dist-packages/minieigen.so  
-- Found Tkinter: /usr/lib/python2.7/lib-tk/Tkinter.pyc  
-- VTK version >5 and <8 is found
-- ===========================================================
-- Yade configured with following features: Odeint VTK OpenMP GTS GUI-Qt5 CGAL PFVFLOW LINSOLV CHOLMOD_GPU TWOPHASEFLOW GL2PS LBMFLOW
-- Disabled features: SPH DEFORM LIQMIGRATION MASK_ARBITRARY THERMAL PROFILING PotentialParticles PotentialBlocks
-- Optimized build
-- ===========================================================
-- Configuring done
-- Generating done
CMake Warning:
  Manually-specified variables were not used by the project:

    SUITESPARSEPATH


-- Build files have been written to: /home/AD/nguyen39/Programmes/YADE2019/bin


We  have tried with earlier Yade versions (compiled from source) including v1.20, v2018.02b, v2019.01a and the stress output was correct. 

However, both Yadedaily binary install from `sudo apt install yadedaily`
and compiled from source (version Yade -2020.01a) provided incorrect
stress values.

Anyway, currently the script works fine with Yade-2019.01a, so I will stick with this version. This question is considered solved. About what changes have been exactly made, I might make another query when I get a hand on `git diff` as Jerome suggested.
Thank you.

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