Your message dated Sun, 24 Oct 2021 00:21:38 +0200
with message-id <db9c40d9a25089a3673e005ef9ed3...@debian.org>
and subject line sundials hypre
has caused the Debian Bug report #997275,
regarding sundials: FTBFS: ld: cannot find -lHYPRE_core
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
997275: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=997275
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: sundials
Version: 5.7.0+dfsg-1
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> dh_auto_configure -- -DCMAKE_Fortran_COMPILER=gfortran
> -DBUILD_SHARED_LIBS:BOOL=ON -DBUILD_STATIC_LIBS:BOOL=ON
> -DBUILD_FORTRAN77_INTERFACE:BOOL=ON -DENABLE_MPI:BOOL=ON
> -DENABLE_LAPACK:BOOL=OFF -DEXAMPLES_ENABLE_C:BOOL=ON
> -DEXAMPLES_ENABLE_CXX:BOOL=ON -DEXAMPLES_ENABLE_F77:BOOL=ON
> -DEXAMPLES_INSTALL:BOOL=ON -DENABLE_OPENMP:BOOL=ON -DENABLE_PTHREAD:BOOL=ON
> -DENABLE_KLU:BOOL=ON -DKLU_INCLUDE_DIR=/usr/include/suitesparse
> -DKLU_LIBRARY_DIR=/usr/lib/x86_64-linux-gnu -DENABLE_PETSC:BOOL=ON
> -DENABLE_HYPRE:BOOL=ON -DHYPRE_INCLUDE_DIR=/usr/include/hypre
> -DHYPRE_LIBRARY=-lHYPRE_core -DCMAKE_C_FLAGS=-fcommon
> -DENABLE_SUPERLUMT:BOOL=OFF
> cd debian/build && cmake -DCMAKE_INSTALL_PREFIX=/usr
> -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc
> -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
> -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF
> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run
> -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles"
> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu
> -DCMAKE_Fortran_COMPILER=gfortran -DBUILD_SHARED_LIBS:BOOL=ON
> -DBUILD_STATIC_LIBS:BOOL=ON -DBUILD_FORTRAN77_INTERFACE:BOOL=ON
> -DENABLE_MPI:BOOL=ON -DENABLE_LAPACK:BOOL=OFF -DEXAMPLES_ENABLE_C:BOOL=ON
> -DEXAMPLES_ENABLE_CXX:BOOL=ON -DEXAMPLES_ENABLE_F77:BOOL=ON
> -DEXAMPLES_INSTALL:BOOL=ON -DENABLE_OPENMP:BOOL=ON -DENABLE_PTHREAD:BOOL=ON
> -DENABLE_KLU:BOOL=ON -DKLU_INCLUDE_DIR=/usr/include/suitesparse
> -DKLU_LIBRARY_DIR=/usr/lib/x86_64-linux-gnu -DENABLE_PETSC:BOOL=ON
> -DENABLE_HYPRE:BOOL=ON -DHYPRE_INCLUDE_DIR=/usr/include/hypre
> -DHYPRE_LIBRARY=-lHYPRE_core -DCMAKE_C_FLAGS=-fcommon
> -DENABLE_SUPERLUMT:BOOL=OFF ../..
> -- The C compiler identification is GNU 11.2.0
> -- Detecting C compiler ABI info
> -- Detecting C compiler ABI info - done
> -- Check for working C compiler: /usr/bin/cc - skipped
> -- Detecting C compile features
> -- Detecting C compile features - done
> -- Looking for sys/types.h
> -- Looking for sys/types.h - found
> -- Looking for stdint.h
> -- Looking for stdint.h - found
> -- Looking for stddef.h
> -- Looking for stddef.h - found
> -- Check size of int64_t
> -- Check size of int64_t - done
> -- Using int64_t for indices
> -- The Fortran compiler identification is GNU 11.2.0
> -- Detecting Fortran compiler ABI info
> -- Detecting Fortran compiler ABI info - done
> -- Check for working Fortran compiler: /usr/bin/gfortran - skipped
> -- Checking whether /usr/bin/gfortran supports Fortran 90
> -- Checking whether /usr/bin/gfortran supports Fortran 90 - yes
> -- Determining Fortran name-mangling scheme... OK
> -- The CXX compiler identification is GNU 11.2.0
> -- Detecting CXX compiler ABI info
> -- Detecting CXX compiler ABI info - done
> -- Check for working CXX compiler: /usr/bin/c++ - skipped
> -- Detecting CXX compile features
> -- Detecting CXX compile features - done
> -- CXX standard set to 11
> CMake Warning (dev) at
> /usr/share/cmake-3.21/Modules/FindPackageHandleStandardArgs.cmake:438
> (message):
> The package name passed to `find_package_handle_standard_args` (PkgConfig)
> does not match the name of the calling package (MPI). This can lead to
> problems in calling code that expects `find_package` result variables
> (e.g., `_FOUND`) to follow a certain pattern.
> Call Stack (most recent call first):
> /usr/share/cmake-3.21/Modules/FindPkgConfig.cmake:70
> (find_package_handle_standard_args)
> /usr/share/cmake-3.21/Modules/FindMPI.cmake:270 (include)
> cmake/tpl/SundialsMPI.cmake:71 (find_package)
> cmake/SundialsSetupTPLs.cmake:22 (include)
> CMakeLists.txt:171 (include)
> This warning is for project developers. Use -Wno-dev to suppress it.
>
> -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.2")
> -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found
> suitable version "3.1", minimum required is "2.0.0")
> -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so (found
> suitable version "3.1", minimum required is "2.0.0")
> -- Found MPI_Fortran: /usr/lib/x86_64-linux-gnu/libmpi_usempif08.so (found
> suitable version "3.1", minimum required is "2.0.0")
> -- Found MPI: TRUE (found suitable version "3.1", minimum required is
> "2.0.0")
> -- Found OpenMP_C: -fopenmp (found version "4.5")
> -- Found OpenMP_CXX: -fopenmp (found version "4.5")
> -- Found OpenMP_Fortran: -fopenmp (found version "4.5")
> -- Found OpenMP: TRUE (found version "4.5")
> -- Looking for pthread.h
> -- Looking for pthread.h - found
> -- Performing Test CMAKE_HAVE_LIBC_PTHREAD
> -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
> -- Looking for pthread_create in pthreads
> -- Looking for pthread_create in pthreads - not found
> -- Looking for pthread_create in pthread
> -- Looking for pthread_create in pthread - found
> -- Found Threads: TRUE
> -- Checking if Pthreads is available -- OK
> -- Found KLU: /usr/lib/x86_64-linux-gnu/libklu.so
> -- KLU_LIBRARIES:
> /usr/lib/x86_64-linux-gnu/libklu.so;/usr/lib/x86_64-linux-gnu/libamd.so;/usr/lib/x86_64-linux-gnu/libcolamd.so;/usr/lib/x86_64-linux-gnu/libbtf.so;/usr/lib/x86_64-linux-gnu/libsuitesparseconfig.so
> -- KLU_INCLUDE_DIR: /usr/include/suitesparse
> -- Checking if KLU works... OK
> -- Found HYPRE: -lHYPRE_core
> -- HYPRE_LIBRARIES: -lHYPRE_core;
> -- HYPRE_INCLUDE_DIR: /usr/include/hypre
> -- Checking if HYPRE works... FAILED
> -- Check output:
> Change Dir: /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
>
> Run Build Command(s):/usr/bin/gmake -f Makefile && gmake[2]: Entering
> directory '/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST'
> /usr/bin/cmake -S/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
> -B/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST --check-build-system
> CMakeFiles/Makefile.cmake 0
> /usr/bin/cmake -E cmake_progress_start
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST/CMakeFiles
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST//CMakeFiles/progress.marks
> /usr/bin/gmake -f CMakeFiles/Makefile2 all
> gmake[3]: Entering directory '/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST'
> /usr/bin/gmake -f CMakeFiles/ltest.dir/build.make CMakeFiles/ltest.dir/depend
> gmake[4]: Entering directory '/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST'
> cd /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST && /usr/bin/cmake -E
> cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST/CMakeFiles/ltest.dir/DependInfo.cmake
> Scanning dependencies of target ltest
> gmake[4]: Leaving directory '/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST'
> /usr/bin/gmake -f CMakeFiles/ltest.dir/build.make CMakeFiles/ltest.dir/build
> gmake[4]: Entering directory '/<<PKGBUILDDIR>>/debian/build/HYPRE_TEST'
> [ 50%] Building C object CMakeFiles/ltest.dir/ltest.c.o
> /usr/bin/mpicc -I/usr/include/hypre -fcommon -o
> CMakeFiles/ltest.dir/ltest.c.o -c
> /<<PKGBUILDDIR>>/debian/build/HYPRE_TEST/ltest.c
> [100%] Linking C executable ltest
> /usr/bin/cmake -E cmake_link_script CMakeFiles/ltest.dir/link.txt --verbose=1
> /usr/bin/mpicc -fcommon -rdynamic CMakeFiles/ltest.dir/ltest.c.o -o ltest
> -lHYPRE_core
> /usr/bin/ld: cannot find -lHYPRE_core
> collect2: error: ld returned 1 exit status
The full build log is available from:
http://qa-logs.debian.net/2021/10/23/sundials_5.7.0+dfsg-1_unstable.log
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
If you reassign this bug to another package, please marking it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.
--- End Message ---
--- Begin Message ---
fixed 997275 5.8.0+dfsg-1~exp1
thanks
Fixed in
https://salsa.debian.org/science-team/sundials/-/commit/1918f6401ca5cdc6682c6452e925eb1f8570ba10
--- End Message ---
