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(partial) EasyBuild log for failed build of /tmp/eb_install.b8l9E/eb-_qcqjkpl/files_pr20444/d/dorado/dorado-0.6.1-foss-2023a-CUDA-12.1.1.eb (PR(s) #20444)
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| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [ 33%] Built target streamvbyte_static | |
| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [ 66%] Built target streamvbyte | |
| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [ 75%] Built target example | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [ 83%] Built target perf | |
| make[5]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [ 91%] Built target writeseq | |
| make[5]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| [100%] Built target unit | |
| make[4]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| Install the project... | |
| -- Install configuration: "Release" | |
| -- Installing: /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include/streamvbyte.h | |
| -- Installing: /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include/streamvbytedelta.h | |
| -- Installing: /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include/streamvbyte_zigzag.h | |
| -- Installing: /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/lib/libstreamvbyte.so | |
| -- Installing: /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/lib/libstreamvbyte_static.a | |
| make[3]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-build && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E touch /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-stamp/streamvbyte-install | |
| [ 36%] Completed 'streamvbyte' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E make_directory /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/CMakeFiles | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E touch /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/CMakeFiles/streamvbyte-complete | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E touch /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte/src/streamvbyte-stamp/streamvbyte-done | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 36%] Built target streamvbyte | |
| make -f dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/build.make dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/depend | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/DependInfo.cmake --color= | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make -f dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/build.make dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/build | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 36%] Building CXX object dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/vbz.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/third_party -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++11 -fPIC -Wall -Wextra -Werror -Wno-unused-parameter -Wno-missing-field-initializers -Wno-maybe-uninitialized -mssse3 -MD -MT dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/vbz.cpp.o -MF CMakeFiles/vbz.dir/vbz.cpp.o.d -o CMakeFiles/vbz.dir/vbz.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz/vbz.cpp | |
| [ 37%] Building CXX object dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/v1/vbz_streamvbyte.cpp.o | |
| [ 37%] Building CXX object dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/v0/vbz_streamvbyte.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/third_party -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++11 -fPIC -Wall -Wextra -Werror -Wno-unused-parameter -Wno-missing-field-initializers -Wno-maybe-uninitialized -mssse3 -MD -MT dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/v1/vbz_streamvbyte.cpp.o -MF CMakeFiles/vbz.dir/v1/vbz_streamvbyte.cpp.o.d -o CMakeFiles/vbz.dir/v1/vbz_streamvbyte.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz/v1/vbz_streamvbyte.cpp | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/third_party -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++11 -fPIC -Wall -Wextra -Werror -Wno-unused-parameter -Wno-missing-field-initializers -Wno-maybe-uninitialized -mssse3 -MD -MT dorado/3rdparty/hdf_plugins/vbz/CMakeFiles/vbz.dir/v0/vbz_streamvbyte.cpp.o -MF CMakeFiles/vbz.dir/v0/vbz_streamvbyte.cpp.o.d -o CMakeFiles/vbz.dir/v0/vbz_streamvbyte.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz/v0/vbz_streamvbyte.cpp | |
| [ 38%] Linking CXX static library ../../../../lib/libvbz.a | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/vbz.dir/cmake_clean_target.cmake | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/vbz.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc ../../../../lib/libvbz.a CMakeFiles/vbz.dir/v0/vbz_streamvbyte.cpp.o CMakeFiles/vbz.dir/v1/vbz_streamvbyte.cpp.o CMakeFiles/vbz.dir/vbz.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ranlib ../../../../lib/libvbz.a | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 38%] Built target vbz | |
| make -f dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/build.make dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/depend | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/DependInfo.cmake --color= | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make -f dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/build.make dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/build | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 38%] Building CXX object dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/vbz_plugin.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/third_party -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin/../third_party -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/streamvbyte_lib/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++11 -fPIC -Wall -Wextra -Werror -Wno-unused-parameter -Wno-missing-field-initializers -Wno-maybe-uninitialized -MD -MT dorado/3rdparty/hdf_plugins/vbz_plugin/CMakeFiles/vbz_hdf_plugin.dir/vbz_plugin.cpp.o -MF CMakeFiles/vbz_hdf_plugin.dir/vbz_plugin.cpp.o.d -o CMakeFiles/vbz_hdf_plugin.dir/vbz_plugin.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin/vbz_plugin.cpp | |
| [ 39%] Linking CXX static library ../../../../lib/libvbz_hdf_plugin.a | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/vbz_hdf_plugin.dir/cmake_clean_target.cmake | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/hdf_plugins/vbz_plugin && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/vbz_hdf_plugin.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc ../../../../lib/libvbz_hdf_plugin.a CMakeFiles/vbz_hdf_plugin.dir/vbz_plugin.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ranlib ../../../../lib/libvbz_hdf_plugin.a | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 39%] Built target vbz_hdf_plugin | |
| [ 39%] Linking CXX static library libdorado_utils.a | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/dorado_utils.dir/cmake_clean_target.cmake | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_utils.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc libdorado_utils.a CMakeFiles/dorado_utils.dir/alignment_utils.cpp.o CMakeFiles/dorado_utils.dir/bam_utils.cpp.o CMakeFiles/dorado_utils.dir/barcode_kits.cpp.o CMakeFiles/dorado_utils.dir/basecaller_utils.cpp.o CMakeFiles/dorado_utils.dir/crypto_utils.cpp.o CMakeFiles/dorado_utils.dir/dev_utils.cpp.o CMakeFiles/dorado_utils.dir/duplex_utils.cpp.o CMakeFiles/dorado_utils.dir/fs_utils.cpp.o CMakeFiles/dorado_utils.dir/gpu_monitor.cpp.o CMakeFiles/dorado_utils.dir/hts_file.cpp.o CMakeFiles/dorado_utils.dir/locale_utils.cpp.o CMakeFiles/dorado_utils.dir/log_utils.cpp.o CMakeFiles/dorado_utils.dir/memory_utils.cpp.o CMakeFiles/dorado_utils.dir/parameters.cpp.o CMakeFiles/dorado_utils.dir/parse_custom_kit.cpp.o CMakeFiles/dorado_utils.dir/SampleSheet.cpp.o CMakeFiles/dorado_utils.dir/scoped_trace_log.cpp.o CMakeFiles/dorado_utils.dir/sequence_utils.cpp.o CMakeFiles/dorado_utils.dir/stats.cpp.o CMakeFiles/dorado_utils.dir/sys_stats.cpp.o CMakeFiles/dorado_utils.dir/tensor_utils.cpp.o CMakeFiles/dorado_utils.dir/thread_utils.cpp.o CMakeFiles/dorado_utils.dir/time_utils.cpp.o CMakeFiles/dorado_utils.dir/torch_utils.cpp.o CMakeFiles/dorado_utils.dir/trim_rapid_adapter.cpp.o CMakeFiles/dorado_utils.dir/trim.cpp.o CMakeFiles/dorado_utils.dir/types.cpp.o CMakeFiles/dorado_utils.dir/uuid_utils.cpp.o CMakeFiles/dorado_utils.dir/cuda_utils.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ranlib libdorado_utils.a | |
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| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase/CMakeFiles/dorado_modbase.dir/DependInfo.cmake --color= | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall/CMakeFiles/dorado_basecall.dir/DependInfo.cmake --color= | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/models /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/DependInfo.cmake --color= | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_depends "Unix Makefiles" /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests/CMakeFiles/dorado_tests_common.dir/DependInfo.cmake --color= | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
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| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
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| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make[2]: Entering directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 40%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/ModelRunner.cpp.o | |
| [ 40%] Building CXX object dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx.gch | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DDORADO_MODELS_HAS_CURL_EXE=1 -DDORADO_MODELS_HAS_FOUNDATION=0 -DDORADO_MODELS_HAS_HTTPLIB=1 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include/elzip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs/minizip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/elzip/extlibs/minizip -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cpp-httplib -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/openssl3-Linux-x86_64/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -x c++-header -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx -MD -MT dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx.gch -MF CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx.gch.d -o CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx.gch -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx.cxx | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/ModelRunner.cpp.o -MF CMakeFiles/dorado_basecall.dir/ModelRunner.cpp.o.d -o CMakeFiles/dorado_basecall.dir/ModelRunner.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/ModelRunner.cpp | |
| [ 40%] Building CXX object tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx.gch | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -x c++-header -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx.gch -MF CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx.gch.d -o CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx.gch -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx.cxx | |
| [ 41%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/crf_utils.cpp.o | |
| [ 41%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseCaller.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/crf_utils.cpp.o -MF CMakeFiles/dorado_basecall.dir/crf_utils.cpp.o.d -o CMakeFiles/dorado_basecall.dir/crf_utils.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/crf_utils.cpp | |
| [ 42%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseContext.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseCaller.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModBaseCaller.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModBaseCaller.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModBaseCaller.cpp | |
| [ 42%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/beam_search.cpp.o | |
| [ 42%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/CRFModelConfig.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/beam_search.cpp.o -MF CMakeFiles/dorado_basecall.dir/decode/beam_search.cpp.o.d -o CMakeFiles/dorado_basecall.dir/decode/beam_search.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/decode/beam_search.cpp | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseContext.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModBaseContext.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModBaseContext.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModBaseContext.cpp | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/CRFModelConfig.cpp.o -MF CMakeFiles/dorado_basecall.dir/CRFModelConfig.cpp.o.d -o CMakeFiles/dorado_basecall.dir/CRFModelConfig.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/CRFModelConfig.cpp | |
| [ 42%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/CPUDecoder.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/CPUDecoder.cpp.o -MF CMakeFiles/dorado_basecall.dir/decode/CPUDecoder.cpp.o.d -o CMakeFiles/dorado_basecall.dir/decode/CPUDecoder.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/decode/CPUDecoder.cpp | |
| [ 42%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModbaseEncoder.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModbaseEncoder.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModbaseEncoder.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModbaseEncoder.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModbaseEncoder.cpp | |
| [ 43%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/Decoder.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/Decoder.cpp.o -MF CMakeFiles/dorado_basecall.dir/decode/Decoder.cpp.o.d -o CMakeFiles/dorado_basecall.dir/decode/Decoder.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/decode/Decoder.cpp | |
| /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModbaseEncoder.cpp:164:1: warning: std::vector<signed char, std::allocator<signed char> > dorado::modbase::{anonymous}::encode_kmer_len9(const std::vector<int>&, const std::vector<int>&, int, int, int) defined but not used [-Wunused-function] | |
| 164 | encode_kmer_len9(const std::vector<int>& seq, | |
| | ^~~~~~~~~~~~~~~~ | |
| [ 43%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/nn/CRFModel.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/nn/CRFModel.cpp.o -MF CMakeFiles/dorado_basecall.dir/nn/CRFModel.cpp.o.d -o CMakeFiles/dorado_basecall.dir/nn/CRFModel.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/nn/CRFModel.cpp | |
| [ 44%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseModelConfig.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseModelConfig.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModBaseModelConfig.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModBaseModelConfig.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModBaseModelConfig.cpp | |
| [ 44%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseRunner.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModBaseRunner.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModBaseRunner.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModBaseRunner.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModBaseRunner.cpp | |
| [ 45%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/CudaModelRunner.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/CudaModelRunner.cpp.o -MF CMakeFiles/dorado_basecall.dir/CudaModelRunner.cpp.o.d -o CMakeFiles/dorado_basecall.dir/CudaModelRunner.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/CudaModelRunner.cpp | |
| [ 45%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/ModbaseScaler.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/ModbaseScaler.cpp.o -MF CMakeFiles/dorado_modbase.dir/ModbaseScaler.cpp.o.d -o CMakeFiles/dorado_modbase.dir/ModbaseScaler.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/ModbaseScaler.cpp | |
| [ 45%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/CudaCaller.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/CudaCaller.cpp.o -MF CMakeFiles/dorado_basecall.dir/CudaCaller.cpp.o.d -o CMakeFiles/dorado_basecall.dir/CudaCaller.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/CudaCaller.cpp | |
| [ 46%] Building CXX object tests/CMakeFiles/dorado_tests_common.dir/main.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests_common.dir/main.cpp.o -MF CMakeFiles/dorado_tests_common.dir/main.cpp.o.d -o CMakeFiles/dorado_tests_common.dir/main.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/main.cpp | |
| [ 46%] Building CXX object dorado/models/CMakeFiles/dorado_models_lib.dir/kits.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DDORADO_MODELS_HAS_CURL_EXE=1 -DDORADO_MODELS_HAS_FOUNDATION=0 -DDORADO_MODELS_HAS_HTTPLIB=1 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include/elzip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs/minizip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/elzip/extlibs/minizip -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cpp-httplib -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/openssl3-Linux-x86_64/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx -MD -MT dorado/models/CMakeFiles/dorado_models_lib.dir/kits.cpp.o -MF CMakeFiles/dorado_models_lib.dir/kits.cpp.o.d -o CMakeFiles/dorado_models_lib.dir/kits.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/models/kits.cpp | |
| [ 47%] Building CXX object dorado/models/CMakeFiles/dorado_models_lib.dir/metadata.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DDORADO_MODELS_HAS_CURL_EXE=1 -DDORADO_MODELS_HAS_FOUNDATION=0 -DDORADO_MODELS_HAS_HTTPLIB=1 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include/elzip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs/minizip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/elzip/extlibs/minizip -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cpp-httplib -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/openssl3-Linux-x86_64/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx -MD -MT dorado/models/CMakeFiles/dorado_models_lib.dir/metadata.cpp.o -MF CMakeFiles/dorado_models_lib.dir/metadata.cpp.o.d -o CMakeFiles/dorado_models_lib.dir/metadata.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/models/metadata.cpp | |
| [ 48%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/MotifMatcher.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/MotifMatcher.cpp.o -MF CMakeFiles/dorado_modbase.dir/MotifMatcher.cpp.o.d -o CMakeFiles/dorado_modbase.dir/MotifMatcher.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/MotifMatcher.cpp | |
| [ 48%] Building CXX object dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/CUDADecoder.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/libkoi-0.4.5-Linux-x86_64-cuda-12.0/libkoi-0.4.5-Linux-x86_64-cuda-12.0/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/basecall/CMakeFiles/dorado_basecall.dir/decode/CUDADecoder.cpp.o -MF CMakeFiles/dorado_basecall.dir/decode/CUDADecoder.cpp.o.d -o CMakeFiles/dorado_basecall.dir/decode/CUDADecoder.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/basecall/decode/CUDADecoder.cpp | |
| [ 48%] Building CXX object dorado/models/CMakeFiles/dorado_models_lib.dir/model_downloader.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DDORADO_MODELS_HAS_CURL_EXE=1 -DDORADO_MODELS_HAS_FOUNDATION=0 -DDORADO_MODELS_HAS_HTTPLIB=1 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include/elzip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs/minizip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/elzip/extlibs/minizip -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cpp-httplib -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/openssl3-Linux-x86_64/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx -MD -MT dorado/models/CMakeFiles/dorado_models_lib.dir/model_downloader.cpp.o -MF CMakeFiles/dorado_models_lib.dir/model_downloader.cpp.o.d -o CMakeFiles/dorado_models_lib.dir/model_downloader.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/models/model_downloader.cpp | |
| [ 48%] Building CXX object dorado/modbase/CMakeFiles/dorado_modbase.dir/nn/ModBaseModel.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT dorado/modbase/CMakeFiles/dorado_modbase.dir/nn/ModBaseModel.cpp.o -MF CMakeFiles/dorado_modbase.dir/nn/ModBaseModel.cpp.o.d -o CMakeFiles/dorado_modbase.dir/nn/ModBaseModel.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/modbase/nn/ModBaseModel.cpp | |
| [ 50%] Building CXX object dorado/models/CMakeFiles/dorado_models_lib.dir/models.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DDORADO_MODELS_HAS_CURL_EXE=1 -DDORADO_MODELS_HAS_FOUNDATION=0 -DDORADO_MODELS_HAS_HTTPLIB=1 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/include/elzip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/elzip/extlibs/minizip -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/3rdparty/elzip/extlibs/minizip -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cpp-httplib -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/openssl3-Linux-x86_64/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models/CMakeFiles/dorado_models_lib.dir/cmake_pch.hxx -MD -MT dorado/models/CMakeFiles/dorado_models_lib.dir/models.cpp.o -MF CMakeFiles/dorado_models_lib.dir/models.cpp.o.d -o CMakeFiles/dorado_models_lib.dir/models.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/models/models.cpp | |
| [ 50%] Building CXX object tests/CMakeFiles/dorado_tests_common.dir/TestUtils.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests/CMakeFiles/dorado_tests_common.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests_common.dir/TestUtils.cpp.o -MF CMakeFiles/dorado_tests_common.dir/TestUtils.cpp.o.d -o CMakeFiles/dorado_tests_common.dir/TestUtils.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/TestUtils.cpp | |
| [ 51%] Linking CXX static library libdorado_basecall.a | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/dorado_basecall.dir/cmake_clean_target.cmake | |
| [ 51%] Linking CXX static library libdorado_models_lib.a | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/dorado_models_lib.dir/cmake_clean_target.cmake | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/basecall && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_basecall.dir/link.txt --verbose=1 | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/models && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_models_lib.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc libdorado_basecall.a CMakeFiles/dorado_basecall.dir/crf_utils.cpp.o CMakeFiles/dorado_basecall.dir/CRFModelConfig.cpp.o CMakeFiles/dorado_basecall.dir/ModelRunner.cpp.o CMakeFiles/dorado_basecall.dir/decode/beam_search.cpp.o CMakeFiles/dorado_basecall.dir/decode/CPUDecoder.cpp.o CMakeFiles/dorado_basecall.dir/decode/Decoder.cpp.o CMakeFiles/dorado_basecall.dir/nn/CRFModel.cpp.o CMakeFiles/dorado_basecall.dir/CudaModelRunner.cpp.o CMakeFiles/dorado_basecall.dir/CudaCaller.cpp.o CMakeFiles/dorado_basecall.dir/decode/CUDADecoder.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc libdorado_models_lib.a CMakeFiles/dorado_models_lib.dir/kits.cpp.o CMakeFiles/dorado_models_lib.dir/metadata.cpp.o CMakeFiles/dorado_models_lib.dir/model_downloader.cpp.o CMakeFiles/dorado_models_lib.dir/models.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ranlib libdorado_basecall.a | |
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| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
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| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/dorado_tests_common.dir/cmake_clean_target.cmake | |
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| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_tests_common.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ar qc libdorado_tests_common.a CMakeFiles/dorado_tests_common.dir/main.cpp.o CMakeFiles/dorado_tests_common.dir/TestUtils.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/binutils/2.40-GCCcore-12.3.0/bin/ranlib libdorado_tests_common.a | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [ 51%] Built target dorado_tests_common | |
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| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -P CMakeFiles/dorado_modbase.dir/cmake_clean_target.cmake | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/modbase && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_modbase.dir/link.txt --verbose=1 | |
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| [ 70%] Building CXX object CMakeFiles/dorado_lib.dir/dorado/demux/BarcodeClassifier.cpp.o | |
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| [ 70%] Building CXX object CMakeFiles/dorado_lib.dir/dorado/demux/BarcodeClassifierSelector.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT CMakeFiles/dorado_lib.dir/dorado/demux/BarcodeClassifierSelector.cpp.o -MF CMakeFiles/dorado_lib.dir/dorado/demux/BarcodeClassifierSelector.cpp.o.d -o CMakeFiles/dorado_lib.dir/dorado/demux/BarcodeClassifierSelector.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/demux/BarcodeClassifierSelector.cpp | |
| In lambda function, | |
| inlined from std::vector<dorado::splitter::EdistResult> dorado::splitter::myers_align(std::string_view, std::string_view, std::size_t) at /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/splitter/myers.cpp:135:18: | |
| /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/splitter/myers.cpp:99:41: warning: *(long unsigned int*)((char*)¤t_range_end + offsetof(std::optional<long unsigned int>,std::optional<long unsigned int>::<unnamed>.std::_Optional_base<long unsigned int, true, true>::<unnamed>)) may be used uninitialized [-Wmaybe-uninitialized] | |
| 99 | ranges.push_back( | |
| | ~~~~~~~~~~~~~~~~^ | |
| 100 | {min_match_start + edlib_result.startLocations[i], end, edist}); | |
| | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | |
| /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/splitter/myers.cpp: In function std::vector<dorado::splitter::EdistResult> dorado::splitter::myers_align(std::string_view, std::string_view, std::size_t): | |
| /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/splitter/myers.cpp:117:32: note: *(long unsigned int*)((char*)¤t_range_end + offsetof(std::optional<long unsigned int>,std::optional<long unsigned int>::<unnamed>.std::_Optional_base<long unsigned int, true, true>::<unnamed>)) was declared here | |
| 117 | std::optional<std::size_t> current_range_end; | |
| | ^~~~~~~~~~~~~~~~~ | |
| [ 71%] Building CXX object CMakeFiles/dorado_lib.dir/dorado/demux/parse_custom_sequences.cpp.o | |
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| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/AdapterDetectorTest.cpp.o -MF CMakeFiles/dorado_tests.dir/AdapterDetectorTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/AdapterDetectorTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/AdapterDetectorTest.cpp | |
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| [ 79%] Building CXX object tests/CMakeFiles/dorado_tests.dir/AlignerTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/AlignerTest.cpp.o -MF CMakeFiles/dorado_tests.dir/AlignerTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/AlignerTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/AlignerTest.cpp | |
| [ 80%] Building CXX object CMakeFiles/dorado.dir/dorado/cli/download.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT CMakeFiles/dorado.dir/dorado/cli/download.cpp.o -MF CMakeFiles/dorado.dir/dorado/cli/download.cpp.o.d -o CMakeFiles/dorado.dir/dorado/cli/download.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/cli/download.cpp | |
| g++: fatal error: Killed signal terminated program cc1plus | |
| compilation terminated. | |
| make[2]: *** [tests/CMakeFiles/dorado_smoke_tests.dir/build.make:81: tests/CMakeFiles/dorado_smoke_tests.dir/NodeSmokeTest.cpp.o] Error 1 | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make[1]: *** [CMakeFiles/Makefile2:1009: tests/CMakeFiles/dorado_smoke_tests.dir/all] Error 2 | |
| make[1]: *** Waiting for unfinished jobs.... | |
| [ 80%] Building CXX object CMakeFiles/dorado.dir/dorado/cli/summary.cpp.o | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT CMakeFiles/dorado.dir/dorado/cli/summary.cpp.o -MF CMakeFiles/dorado.dir/dorado/cli/summary.cpp.o.d -o CMakeFiles/dorado.dir/dorado/cli/summary.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/cli/summary.cpp | |
| g++: fatal error: Killed signal terminated program cc1plus | |
| compilation terminated. | |
| make[2]: *** [CMakeFiles/dorado.dir/build.make:129: CMakeFiles/dorado.dir/dorado/cli/duplex.cpp.o] Error 1 | |
| make[2]: *** Waiting for unfinished jobs.... | |
| [ 80%] Building CXX object tests/CMakeFiles/dorado_tests.dir/alignment_processing_items_test.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/alignment_processing_items_test.cpp.o -MF CMakeFiles/dorado_tests.dir/alignment_processing_items_test.cpp.o.d -o CMakeFiles/dorado_tests.dir/alignment_processing_items_test.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/alignment_processing_items_test.cpp | |
| [ 81%] Building CXX object tests/CMakeFiles/dorado_tests.dir/AsyncQueueTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/AsyncQueueTest.cpp.o -MF CMakeFiles/dorado_tests.dir/AsyncQueueTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/AsyncQueueTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/AsyncQueueTest.cpp | |
| g++: fatal error: Killed signal terminated program cc1plus | |
| compilation terminated. | |
| make[2]: *** [CMakeFiles/dorado.dir/build.make:161: CMakeFiles/dorado.dir/dorado/cli/basecaller.cpp.o] Error 1 | |
| [ 81%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BamReaderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BamReaderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BamReaderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BamReaderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BamReaderTest.cpp | |
| [ 81%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BamUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BamUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BamUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BamUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BamUtilsTest.cpp | |
| [ 82%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BamWriterTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BamWriterTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BamWriterTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BamWriterTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BamWriterTest.cpp | |
| [ 82%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BarcodeClassifierSelectorTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BarcodeClassifierSelectorTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BarcodeClassifierSelectorTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BarcodeClassifierSelectorTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BarcodeClassifierSelectorTest.cpp | |
| [ 83%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BarcodeClassifierTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BarcodeClassifierTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BarcodeClassifierTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BarcodeClassifierTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BarcodeClassifierTest.cpp | |
| [ 83%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BarcodeDemuxerNodeTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BarcodeDemuxerNodeTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BarcodeDemuxerNodeTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BarcodeDemuxerNodeTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BarcodeDemuxerNodeTest.cpp | |
| [ 83%] Building CXX object tests/CMakeFiles/dorado_tests.dir/BedFileTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/BedFileTest.cpp.o -MF CMakeFiles/dorado_tests.dir/BedFileTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/BedFileTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/BedFileTest.cpp | |
| [ 84%] Building CXX object tests/CMakeFiles/dorado_tests.dir/CliUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/CliUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/CliUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/CliUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/CliUtilsTest.cpp | |
| [ 84%] Building CXX object tests/CMakeFiles/dorado_tests.dir/CRFModelConfigTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/CRFModelConfigTest.cpp.o -MF CMakeFiles/dorado_tests.dir/CRFModelConfigTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/CRFModelConfigTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/CRFModelConfigTest.cpp | |
| [ 85%] Building CXX object tests/CMakeFiles/dorado_tests.dir/CustomBarcodeParserTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/CustomBarcodeParserTest.cpp.o -MF CMakeFiles/dorado_tests.dir/CustomBarcodeParserTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/CustomBarcodeParserTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/CustomBarcodeParserTest.cpp | |
| [ 85%] Building CXX object tests/CMakeFiles/dorado_tests.dir/DuplexReadTaggingNodeTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/DuplexReadTaggingNodeTest.cpp.o -MF CMakeFiles/dorado_tests.dir/DuplexReadTaggingNodeTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/DuplexReadTaggingNodeTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/DuplexReadTaggingNodeTest.cpp | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
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| [ 86%] Building CXX object tests/CMakeFiles/dorado_tests.dir/IndexFileAccessTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/IndexFileAccessTest.cpp.o -MF CMakeFiles/dorado_tests.dir/IndexFileAccessTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/IndexFileAccessTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/IndexFileAccessTest.cpp | |
| [ 87%] Building CXX object tests/CMakeFiles/dorado_tests.dir/MathUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/MathUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/MathUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/MathUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/MathUtilsTest.cpp | |
| [ 87%] Building CXX object tests/CMakeFiles/dorado_tests.dir/Minimap2IndexTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/Minimap2IndexTest.cpp.o -MF CMakeFiles/dorado_tests.dir/Minimap2IndexTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/Minimap2IndexTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/Minimap2IndexTest.cpp | |
| [ 87%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ModBaseEncoderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ModBaseEncoderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ModBaseEncoderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ModBaseEncoderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ModBaseEncoderTest.cpp | |
| [ 88%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ModelKitsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ModelKitsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ModelKitsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ModelKitsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ModelKitsTest.cpp | |
| [ 88%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ModelMetadataTest.cpp.o | |
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| [ 89%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ModelUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ModelUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ModelUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ModelUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ModelUtilsTest.cpp | |
| [ 89%] Building CXX object tests/CMakeFiles/dorado_tests.dir/MotifMatcherTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/MotifMatcherTest.cpp.o -MF CMakeFiles/dorado_tests.dir/MotifMatcherTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/MotifMatcherTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/MotifMatcherTest.cpp | |
| [ 89%] Building CXX object tests/CMakeFiles/dorado_tests.dir/myers_test.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/myers_test.cpp.o -MF CMakeFiles/dorado_tests.dir/myers_test.cpp.o.d -o CMakeFiles/dorado_tests.dir/myers_test.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/myers_test.cpp | |
| [ 90%] Building CXX object tests/CMakeFiles/dorado_tests.dir/PairingNodeTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/PairingNodeTest.cpp.o -MF CMakeFiles/dorado_tests.dir/PairingNodeTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/PairingNodeTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/PairingNodeTest.cpp | |
| [ 90%] Building CXX object tests/CMakeFiles/dorado_tests.dir/PipelineTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/PipelineTest.cpp.o -MF CMakeFiles/dorado_tests.dir/PipelineTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/PipelineTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/PipelineTest.cpp | |
| [ 90%] Building CXX object tests/CMakeFiles/dorado_tests.dir/PolyACalculatorTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/PolyACalculatorTest.cpp.o -MF CMakeFiles/dorado_tests.dir/PolyACalculatorTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/PolyACalculatorTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/PolyACalculatorTest.cpp | |
| [ 91%] Building CXX object tests/CMakeFiles/dorado_tests.dir/PostConditionTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/PostConditionTest.cpp.o -MF CMakeFiles/dorado_tests.dir/PostConditionTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/PostConditionTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/PostConditionTest.cpp | |
| [ 91%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ReadFilterNodeTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ReadFilterNodeTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ReadFilterNodeTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ReadFilterNodeTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ReadFilterNodeTest.cpp | |
| [ 92%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ReadForwarderNodeTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ReadForwarderNodeTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ReadForwarderNodeTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ReadForwarderNodeTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ReadForwarderNodeTest.cpp | |
| [ 92%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ReadTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ReadTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ReadTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ReadTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ReadTest.cpp | |
| [ 92%] Building CXX object tests/CMakeFiles/dorado_tests.dir/RealignMovesTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/RealignMovesTest.cpp.o -MF CMakeFiles/dorado_tests.dir/RealignMovesTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/RealignMovesTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/RealignMovesTest.cpp | |
| [ 93%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ResumeLoaderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ResumeLoaderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ResumeLoaderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ResumeLoaderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ResumeLoaderTest.cpp | |
| [ 93%] Building CXX object tests/CMakeFiles/dorado_tests.dir/RNASplitTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/RNASplitTest.cpp.o -MF CMakeFiles/dorado_tests.dir/RNASplitTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/RNASplitTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/RNASplitTest.cpp | |
| [ 94%] Building CXX object tests/CMakeFiles/dorado_tests.dir/SampleSheetTests.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/SampleSheetTests.cpp.o -MF CMakeFiles/dorado_tests.dir/SampleSheetTests.cpp.o.d -o CMakeFiles/dorado_tests.dir/SampleSheetTests.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/SampleSheetTests.cpp | |
| [ 94%] Building CXX object tests/CMakeFiles/dorado_tests.dir/SequenceUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/SequenceUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/SequenceUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/SequenceUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/SequenceUtilsTest.cpp | |
| [ 94%] Building CXX object tests/CMakeFiles/dorado_tests.dir/StereoDuplexTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/StereoDuplexTest.cpp.o -MF CMakeFiles/dorado_tests.dir/StereoDuplexTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/StereoDuplexTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/StereoDuplexTest.cpp | |
| [ 95%] Building CXX object tests/CMakeFiles/dorado_tests.dir/StitchTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/StitchTest.cpp.o -MF CMakeFiles/dorado_tests.dir/StitchTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/StitchTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/StitchTest.cpp | |
| [ 95%] Building CXX object tests/CMakeFiles/dorado_tests.dir/StringUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/StringUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/StringUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/StringUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/StringUtilsTest.cpp | |
| [ 96%] Building CXX object tests/CMakeFiles/dorado_tests.dir/TensorUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/TensorUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/TensorUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/TensorUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/TensorUtilsTest.cpp | |
| [ 96%] Building CXX object tests/CMakeFiles/dorado_tests.dir/TimeUtilsTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/TimeUtilsTest.cpp.o -MF CMakeFiles/dorado_tests.dir/TimeUtilsTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/TimeUtilsTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/TimeUtilsTest.cpp | |
| [ 96%] Building CXX object tests/CMakeFiles/dorado_tests.dir/TrimRapidAdapterTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/TrimRapidAdapterTest.cpp.o -MF CMakeFiles/dorado_tests.dir/TrimRapidAdapterTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/TrimRapidAdapterTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/TrimRapidAdapterTest.cpp | |
| [ 97%] Building CXX object tests/CMakeFiles/dorado_tests.dir/TrimTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/TrimTest.cpp.o -MF CMakeFiles/dorado_tests.dir/TrimTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/TrimTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/TrimTest.cpp | |
| [ 97%] Building CXX object tests/CMakeFiles/dorado_tests.dir/Fast5DataLoaderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/Fast5DataLoaderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/Fast5DataLoaderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/Fast5DataLoaderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/Fast5DataLoaderTest.cpp | |
| [ 98%] Building CXX object tests/CMakeFiles/dorado_tests.dir/Pod5DataLoaderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/Pod5DataLoaderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/Pod5DataLoaderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/Pod5DataLoaderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/Pod5DataLoaderTest.cpp | |
| [ 98%] Building CXX object tests/CMakeFiles/dorado_tests.dir/ModelFinderTest.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/ModelFinderTest.cpp.o -MF CMakeFiles/dorado_tests.dir/ModelFinderTest.cpp.o.d -o CMakeFiles/dorado_tests.dir/ModelFinderTest.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/ModelFinderTest.cpp | |
| [ 98%] Building CXX object tests/CMakeFiles/dorado_tests.dir/cuda_utils_test.cpp.o | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -DDORADO_CUDA_BUILD=1 -DDORADO_GPU_BUILD=1 -DDORADO_IOS_BUILD=0 -DDORADO_METAL_BUILD=0 -DFMT_BEGIN_NAMESPACE="namespace fmt { inline namespace ont {" -DFMT_END_NAMESPACE=}} -DONLY_C_LOCALE=0 -DPROTOBUF_USE_DLLS -DSPDLOG_COMPILED_LIB -DUSE_C10D_GLOO -DUSE_C10D_MPI -DUSE_C10D_NCCL -DUSE_DISTRIBUTED -DUSE_RPC -DUSE_TENSORPIPE -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/utils/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/date/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/edlib/edlib/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/spdlog/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/compat/.. -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado_generated -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/pod5-0.2.4-Linux/include -I/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/ont-minimap2/src/3rdparty/minimap2 -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/catch2 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/include/torch/csrc/api/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/NVTX/c/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/download/metal-cpp/metal-cpp -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/toml11 -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/protobuf/24.0-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/include -isystem /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/HighFive/include -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/argparse -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/hdf_plugins/vbz_plugin -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/cxxpool/src -isystem /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/dorado/3rdparty/indicators/include -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -std=c++17 -Wall -Wextra -Wundef -Wshadow -Wno-trigraphs -D_GLIBCXX_USE_CXX11_ABI=1 -Winvalid-pch -include /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/dorado/utils/pch/CMakeFiles/dorado_pch.dir/cmake_pch.hxx -MD -MT tests/CMakeFiles/dorado_tests.dir/cuda_utils_test.cpp.o -MF CMakeFiles/dorado_tests.dir/cuda_utils_test.cpp.o.d -o CMakeFiles/dorado_tests.dir/cuda_utils_test.cpp.o -c /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado/tests/cuda_utils_test.cpp | |
| [100%] Linking CXX executable dorado_tests | |
| cd /dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj/tests && /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -E cmake_link_script CMakeFiles/dorado_tests.dir/link.txt --verbose=1 | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/OpenMPI/4.1.5-GCC-12.3.0/bin/mpicxx -O2 -ftree-vectorize -march=native -fno-math-errno -O3 -DNDEBUG -L/home1/p251204/easybuildinstall/software/libaec/1.0.6-GCCcore-12.3.0/lib64 -L/home1/p251204/easybuildinstall/software/libaec/1.0.6-GCCcore-12.3.0/lib -L/home1/p251204/easybuildinstall/software/kineto/0.4.0-GCC-12.3.0/lib64 -L/home1/p251204/easybuildinstall/software/kineto/0.4.0-GCC-12.3.0/lib -L/home1/p251204/easybuildinstall/software/HTSlib/1.18-GCC-12.3.0/lib64 -L/home1/p251204/easybuildinstall/software/HTSlib/1.18-GCC-12.3.0/lib -L/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/lib64 -L/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/lib -L/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/HDF5/1.14.0-gompi-2023a/lib64 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/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/Abseil/20230125.3-GCCcore-12.3.0/lib64/libabsl_log_severity.so.2301.0.0 -Wl,--no-as-needed,"/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libtorch_cuda.so" -Wl,--as-needed /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libc10_cuda.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libc10.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libcudart.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libnvToolsExt.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libcufft.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libcurand.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libcublas.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libculibos.a /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libcublasLt.so -Wl,--no-as-needed,"/cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libtorch.so" -Wl,--as-needed /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libc10.so /home1/p251204/easybuildinstall/software/kineto/0.4.0-GCC-12.3.0/lib/libkineto.a /.singularity.d/libs/libcuda.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libnvrtc.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib/libnvToolsExt.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CUDA/12.1.1/lib64/libcudart.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/PyTorch/2.1.2-foss-2023a-CUDA-12.1.1/lib/python3.11/site-packages/torch/lib/libc10_cuda.so -lssl -lcrypto ../download/openssl3-Linux-x86_64/lib/libssl.a ../download/openssl3-Linux-x86_64/lib/libcrypto.a ../dorado/3rdparty/elzip/libelzip.a ../dorado/3rdparty/elzip/extlibs/minizip/libminizip.a -lstdc++fs ../dorado/3rdparty/spdlog/libspdlog.a /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/HDF5/1.14.0-gompi-2023a/lib/libhdf5.a /usr/lib64/libpthread.so /home1/p251204/easybuildinstall/software/libaec/1.0.6-GCCcore-12.3.0/lib/libsz.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zlib/1.2.13-GCCcore-12.3.0/lib/libz.so /usr/lib64/libdl.so -lm /usr/lib64/libpthread.so /home1/p251204/easybuildinstall/software/libaec/1.0.6-GCCcore-12.3.0/lib/libsz.so /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zlib/1.2.13-GCCcore-12.3.0/lib/libz.so /usr/lib64/libdl.so -lm ../lib/libvbz_hdf_plugin.a ../lib/libvbz.a ../streamvbyte/src/streamvbyte-build/./libstreamvbyte_static.a /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zstd/1.5.5-GCCcore-12.3.0/lib/libzstd.so -ldl /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/zlib/1.2.13-GCCcore-12.3.0/lib/libz.a -lpthread | |
| make[2]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| [100%] Built target dorado_tests | |
| make[1]: Leaving directory '/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj' | |
| make: *** [Makefile:169: all] Error 2 | |
| (at easybuild/tools/run.py:682 in parse_cmd_output) | |
| == 2024-07-06 17:09:51,688 build_log.py:267 INFO ... (took 53 mins 37 secs) | |
| == 2024-07-06 17:09:51,691 filetools.py:2013 INFO Removing lock /home1/p251204/easybuildinstall/software/.locks/_home1_p251204_easybuildinstall_software_dorado_0.6.1-foss-2023a-CUDA-12.1.1.lock... | |
| == 2024-07-06 17:09:51,694 filetools.py:383 INFO Path /home1/p251204/easybuildinstall/software/.locks/_home1_p251204_easybuildinstall_software_dorado_0.6.1-foss-2023a-CUDA-12.1.1.lock successfully removed. | |
| == 2024-07-06 17:09:51,694 filetools.py:2017 INFO Lock removed: /home1/p251204/easybuildinstall/software/.locks/_home1_p251204_easybuildinstall_software_dorado_0.6.1-foss-2023a-CUDA-12.1.1.lock | |
| == 2024-07-06 17:09:51,695 easyblock.py:4285 WARNING build failed (first 300 chars): cmd " make -j 8 " exited with exit code 2 and output: | |
| /cvmfs/hpc.rug.nl/versions/2023.01/rocky8/x86_64/amd/zen3/software/CMake/3.26.3-GCCcore-12.3.0/bin/cmake -S/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/dorado -B/dev/shm/p251204/dorado/0.6.1/foss-2023a-CUDA-12.1.1/easybuild_obj --check-b | |
| == 2024-07-06 17:09:51,696 easyblock.py:328 INFO Closing log for application name dorado version 0.6.1 |
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