Hi,
Don't worry about 'make test'.
It is for our internal use only.
Best regards,
Takanori Nakane
On 2019/02/15 18:12, Darin Lory wrote:
> Community,
>
> I'm using RHEL 7.6 with openmpi 1.10.7-2.el7 with CUDA Toolkit 10 and
> NVidia V100.
>
> Cmake 3.13.1 from the yum package.
>
> I'm having issues with getting the make test to pass is there a way to
> diagnose where the issues are?
>
> [root@ip-10-246-148-209 build]# env |grep LD_LIBRARY
> LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/apps/packages/relion/external/fltk/lib:/apps/packages/relion/external/fftw/lib:/usr/local/cuda/lib64:/usr/lib:/usr/local/lib64:/usr/local/lib:/apps/packages/imod/4.9.11/IMOD/lib:
> [root@ip-10-246-148-209 build]# env |grep PATH
> MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/man:/usr/local/share/man
> LD_LIBRARY_PATH=/usr/lib64/openmpi/lib:/apps/packages/relion/external/fltk/lib:/apps/packages/relion/external/fftw/lib:/usr/local/cuda/lib64:/usr/lib:/usr/local/lib64:/usr/local/lib:/apps/packages/imod/4.9.11/IMOD/lib:
> PATH=/apps/packages/java/jre1.8.0_201/jre/bin:/apps/packages/java/jre1.8.0_201/bin:/usr/lib64/openmpi/bin:/usr/lib64/ccache:/apps/packages/imod/4.9.11/IMOD/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin:/usr/local/bin:/apps/packages/motioncor2/bin:/apps/packages/ctffind/4.1.13/bin:/apps/packages/relion/external/fltk/bin:/apps/packages/relion/external/fftw/bin:/apps/packages/Gctf/1.06/bin:/apps/packages/resmap/1.95:/apps/packages/relion/bin:/apps/packages/unblur/bin:/apps/packages/summovie/1.0.2/summovie_1.0.2/bin:/apps/packages/motioncor2:/apps/packages/chimera/1.13.1:/usr/local/cuda/bin:/usr/local/cuda/NsightCompute-1.0
> MODULEPATH=/usr/share/Modules/modulefiles:/etc/modulefiles
> PYTHONPATH=/usr/lib64/python2.7/site-packages/openmpi
>
> -- Looking for pthread_create in pthreads - not found
> -- Looking for __sincos - not found
>
>
> -- Found CUDA: /usr/local/cuda (found version "10.0")
> -- Using cuda wrapper to compile....
> -- Cuda version is >= 7.5 and single-precision build, enable double usage
> warning.
> -- Found MPI_C: /usr/lib64/openmpi/lib/libmpi.so (found version "3.0")
> -- Found MPI_CXX: /usr/lib64/openmpi/lib/libmpi_cxx.so (found version "3.0")
> -- Found MPI: TRUE (found version "3.0")
> -- MPI_INCLUDE_PATH :
> /usr/include/openmpi-x86_64/;/usr/include/openmpi-x86_64
> -- MPI_LIBRARIES :
> /usr/lib64/openmpi/lib/libmpi_cxx.so;/usr/lib64/openmpi/lib/libmpi.so;/usr/lib64/openmpi/lib/libmpi_cxx.so
> -- MPI_CXX_INCLUDE_PATH :
> /usr/include/openmpi-x86_64/;/usr/include/openmpi-x86_64
> -- MPI_CXX_LIBRARIES :
> /usr/lib64/openmpi/lib/libmpi_cxx.so;/usr/lib64/openmpi/lib/libmpi.so;/usr/lib64/openmpi/lib/libmpi_cxx.so
> -- Looking for XOpenDisplay in /usr/lib64/libX11.so;/usr/lib64/libXext.so
> -- Looking for XOpenDisplay in /usr/lib64/libX11.so;/usr/lib64/libXext.so -
> found
>
> /bin/cmake3 -DMPI_C_COMPILER=/usr/lib64/openmpi/bin/mpicc
> -DMPI_CXX_COMPILER=/usr/lib64/openmpi/bin/mpicxx
> -DCMAKE_INSTALL_PREFIX=/apps/packages/relion/install/
> -DMPI_C_INCLUDE_PATH=/usr/include/openmpi-x86_64/
> -DMPI_C_LIBRARIES=/usr/lib64/openmpi/lib/libmpi.so
> -DMPI_CXX_INCLUDE_PATH=/usr/include/openmpi-x86_64/
> -DMPI_CXX_LIBRARIES=/usr/lib64/openmpi/lib/libmpi_cxx.so
> -DDoublePrec_GPU=ON -DCUDA_ARCH=70 -DFORCE_OWN_FFTW=ON -DFORCE_OWN_FLTK=ON
> .. 2>&1 | tee cmake-log.`date '+%d%b%Y'`
>
> make -j4 2>&1 | tee make-log3.`date '+%d%b%Y'`
> make test 2>&1 | tee make-test-log3.`date '+%d%b%Y'`
> make install 2>&1 | tee make-install-log.`date '+%d%b%Y'`
>
> make test:
> Running tests...
> Test project /apps/packages/relion/build
> Start 1: GPU-2Dc_small
> 1/10 Test #1: GPU-2Dc_small ....................***Failed 3.78 sec
> Start 2: CPU-2Dc_small
> 2/10 Test #2: CPU-2Dc_small ....................***Failed 0.01 sec
> Start 3: GPU-2Dc_medium
> 3/10 Test #3: GPU-2Dc_medium ...................***Failed 3.77 sec
> Start 4: CPU-2Dc_medium
> 4/10 Test #4: CPU-2Dc_medium ...................***Failed 0.01 sec
> Start 5: GPU-3Dc_small
> 5/10 Test #5: GPU-3Dc_small ....................***Failed 3.78 sec
> Start 6: CPU-3Dc_small
> 6/10 Test #6: CPU-3Dc_small ....................***Failed 0.01 sec
> Start 7: GPU-3Dc_medium
> 7/10 Test #7: GPU-3Dc_medium ...................***Failed 3.77 sec
> Start 8: CPU-3Dc_medium
> 8/10 Test #8: CPU-3Dc_medium ...................***Failed 0.01 sec
> Start 9: GPU-3Dc_large
> 9/10 Test #9: GPU-3Dc_large ....................***Failed 3.77 sec
> Start 10: CPU-3Dc_large
> 10/10 Test #10: CPU-3Dc_large ....................***Failed 0.01 sec
>
> 0% tests passed, 10 tests failed out of 10
>
> end of make:
>
> [ 98%] Building CXX object src/apps/CMakeFiles/pipeliner.dir/pipeliner.cpp.o
> [ 98%] Building CXX object src/apps/CMakeFiles/display.dir/display.cpp.o
> [ 98%] Built target particle_polish_mpi
> [ 99%] Linking CXX executable ../../bin/relion_pipeliner
> [100%] Linking CXX executable ../../bin/relion_display
> [100%] Built target pipeliner
> [100%] Built target display
>
> -Darin
>
> "The most exciting phrase to hear in science, the one that heralds new
> discoveries, is not 'Eureka!' (I found it!) but 'That's funny ...'"
> -Issac Asimov
>
>
>
> [image: --]
>
> Darin S. Lory
> [image: https://]about.me/darin.lory
> <https://about.me/darin.lory?promo=email_sig&utm_source=email_sig&utm_medium=email_sig&utm_campaign=external_links>
>
> ########################################################################
>
> To unsubscribe from the CCPEM list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1
>
########################################################################
To unsubscribe from the CCPEM list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1
|