Bug#980709: dolfin: FTBFS: tests failed

[Drew Parsons]

Lucas Nussbaum wrote:

Source: dolfin
Version: 2019.2.0~git20200629.946dbd3+lfs-4

...

During a rebuild of all packages in sid, your package failed to build
on amd64.


Hi Lucas, there have been various test failures associated with the 
recent openmpi upgrade.  They seem to be resolved now. debci now reports 
dolfin test success.


Your test log gives an odd error message.  Can you run your version of 
the test again to confirm if dolfin is now passing for you with the 
latest openmpi updates (including slepc 3.14.1+dfsg1-1+b1) ?



Drew

Bug#980709: dolfin: FTBFS: tests failed

[Lucas Nussbaum]

Source: dolfin
Version: 2019.2.0~git20200629.946dbd3+lfs-4
Severity: serious
Justification: FTBFS on amd64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20210120 ftbfs-bullseye

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.

Relevant part (hopefully):
> make[8]: Entering directory '/<>/obj-x86_64-linux-gnu'
> [ 98%] Building CXX object 
> demo/undocumented/waveguide/cpp/CMakeFiles/demo_waveguide.dir/main.cpp.o
> cd "/<>/obj-x86_64-linux-gnu/demo/undocumented/waveguide/cpp" && 
> /usr/bin/c++ -DDOLFIN_VERSION=\"2019.2.0.dev0\" -DHAS_CHOLMOD -DHAS_HDF5 
> -DHAS_MPI -DHAS_PETSC -DHAS_SCOTCH -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG 
> -I"/<>" -I"/<>/dolfin" 
> -I"/<>/obj-x86_64-linux-gnu" -isystem 
> /usr/lib/python3/dist-packages/ffc/backends/ufc -isystem /usr/include/eigen3 
> -isystem /usr/include/hdf5/openmpi -isystem 
> /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -isystem 
> /usr/lib/x86_64-linux-gnu/openmpi/include -isystem 
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/include -Wno-comment 
> -fpermissive -O2 -g -DNDEBUG -std=c++11 -o 
> CMakeFiles/demo_waveguide.dir/main.cpp.o -c 
> "/<>/demo/undocumented/waveguide/cpp/main.cpp"
> [ 98%] Linking CXX executable demo_spatial-coordinates
> cd 
> "/<>/obj-x86_64-linux-gnu/demo/undocumented/spatial-coordinates/cpp"
>  && /usr/bin/cmake -E cmake_link_script 
> CMakeFiles/demo_spatial-coordinates.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro 
> CMakeFiles/demo_spatial-coordinates.dir/main.cpp.o -o 
> demo_spatial-coordinates  ../../../../dolfin/libdolfin.so.2019.2.0.dev0 
> /usr/lib/x86_64-linux-gnu/libboost_timer.so 
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so 
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so 
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so 
> /usr/lib/x86_64-linux-gnu/libdl.so -lm 
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so 
> make[8]: Leaving directory '/<>/obj-x86_64-linux-gnu'
> [ 98%] Built target demo_spatial-coordinates
> [ 98%] Linking CXX executable demo_waveguide
> cd "/<>/obj-x86_64-linux-gnu/demo/undocumented/waveguide/cpp" && 
> /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_waveguide.dir/link.txt 
> --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro 
> CMakeFiles/demo_waveguide.dir/main.cpp.o -o demo_waveguide  
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0 
> /usr/lib/x86_64-linux-gnu/libboost_timer.so 
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so 
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so 
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so 
> /usr/lib/x86_64-linux-gnu/libdl.so -lm 
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so 
> make[8]: Leaving directory '/<>/obj-x86_64-linux-gnu'
> [ 98%] Built target demo_waveguide
> [100%] Linking CXX executable demo_sym-dirichlet-bc
> cd 
> "/<>/obj-x86_64-linux-gnu/demo/undocumented/sym-dirichlet-bc/cpp"
>  && /usr/bin/cmake -E cmake_link_script 
> CMakeFiles/demo_sym-dirichlet-bc.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro 
> CMakeFiles/demo_sym-dirichlet-bc.dir/main.cpp.o -o demo_sym-dirichlet-bc  
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0 
> /usr/lib/x86_64-linux-gnu/libboost_timer.so 
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so 
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so 
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so 
> /usr/lib/x86_64-linux-gnu/libdl.so -lm 
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so 
> make[8]: Leaving directory '/<>/obj-x86_64-linux-gnu'
> [100%] Built target demo_sym-dirichlet-bc
> [100%] Linking CXX executable demo_time-series
> cd "/<>/obj-x86_64-linux-gnu/demo/undocumented/time-series/cpp" 
> && /usr/bin/cmake -E cmake_link_script 
> CMakeFiles/demo_time-series.dir/link.txt --verbose=1
> /usr/bin/c++ -Wno-comment -fpermissive -O2 -g -DNDEBUG -Wl,-z,relro 
> CMakeFiles/demo_time-series.dir/main.cpp.o -o demo_time-series  
> ../../../../dolfin/libdolfin.so.2019.2.0.dev0 
> /usr/lib/x86_64-linux-gnu/libboost_timer.so 
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so 
> /usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so 
> /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so 
> /usr/lib/x86_64-linux-gnu/libdl.so -lm 
> /usr/lib/petscdir/petsc3.14/x86_64-linux-gnu-real/lib/libpetsc_real.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so 
> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so 
> make[8]: Leaving directory '/<>/obj-x86_64-linux-gnu'
> [100%] Built target