Bug#1013560: trilinos: FTBFS: src.cxx:6:3: error: ‘isnan’ was not declared in this scope; did you mean ‘std::isnan’?
Lucas Nussbaum
lucas at debian.org
Fri Jun 24 11:04:32 BST 2022
Source: trilinos
Version: 13.2.0-1
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-20220624 ftbfs-bookworm
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> gcc version 11.3.0 (Debian 11.3.0-3)
> Reading specs from /usr/lib/gcc/x86_64-linux-gnu/11/libgfortran.spec
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> Determining if the include file sys/time.h exists passed with the following output:
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> gmake[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
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> Determining if the include file time.h exists passed with the following output:
> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_25d48/fast && gmake[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
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> /usr/bin/cmake -E cmake_link_script CMakeFiles/cmTC_25d48.dir/link.txt --verbose=1
> /usr/bin/mpicxx -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed CMakeFiles/cmTC_25d48.dir/CheckIncludeFile.cxx.o -o cmTC_25d48
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> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_75dbe/fast && gmake[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
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>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_6290b/fast && gmake[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> /usr/bin/gmake -f CMakeFiles/cmTC_6290b.dir/build.make CMakeFiles/cmTC_6290b.dir/build
> gmake[3]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> Building CXX object CMakeFiles/cmTC_6290b.dir/CheckIncludeFile.cxx.o
> /usr/bin/mpicxx -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++14 -o CMakeFiles/cmTC_6290b.dir/CheckIncludeFile.cxx.o -c /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.cxx
> Linking CXX executable cmTC_6290b
> /usr/bin/cmake -E cmake_link_script CMakeFiles/cmTC_6290b.dir/link.txt --verbose=1
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> gmake[5]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX'
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /usr/share/cmake-3.23/Modules/FortranCInterface/Verify /usr/share/cmake-3.23/Modules/FortranCInterface/Verify /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX/CMakeFiles/VerifyFortran.dir/DependInfo.cmake
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> [ 66%] Building C object CMakeFiles/VerifyFortranC.dir/VerifyC.c.o
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> gmake[5]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/FortranCInterface/VerifyCXX'
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> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/src.cxx: In function ‘int main()’:
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> 6 | isnan(x);
> | ^~~~~
> | std::isnan
> In file included from /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/src.cxx:2:
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> isnan(x);
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> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
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> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/src.cxx:6:3: error: ‘isinf’ was not declared in this scope; did you mean ‘std::isinf’?
> 6 | isinf(x);
> | ^~~~~
> | std::isinf
> In file included from /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/src.cxx:2:
> /usr/include/c++/11/cmath:605:5: note: ‘std::isinf’ declared here
> 605 | isinf(_Tp __x)
> | ^~~~~
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> dh_auto_configure: error: cd obj-x86_64-linux-gnu && 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_C_COMPILER=mpicc -DCMAKE_CXX_COMPILER=mpicxx -DCMAKE_Fortran_COMPILER=mpif90 -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_SKIP_INSTALL_RPATH:BOOL=ON -DTrilinos_LIBRARY_NAME_PREFIX:STRING=trilinos_ -DTrilinos_INSTALL_INCLUDE_DIR:PATH=include/trilinos/ -DTrilinos_INSTALL_TriBITS:BOOL=OFF -DTrilinos_USE_GNUINSTALLDIRS:BOOL=ON -DTrilinos_ENABLE_DEVELOPMENT_MODE:BOOL=OFF -DTrilinos_ASSERT_MISSING_PACKAGES:BOOL=OFF -DTrilinos_ENABLE_EXPLICIT_INSTANTIATION:BOOL=ON -DTrilinos_ENABLE_EXPORT_MAKEFILES:BOOL=OFF -DTrilinos_ENABLE_EXAMPLES:BOOL=OFF -DTrilinos_ENABLE_TESTS:BOOL=ON -DTrilinos_ENABLE_Amesos:BOOL=ON -DTrilinos_ENABLE_Amesos2:BOOL=ON -DAmesos2_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Anasazi:BOOL=ON -DAnasazi_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_AztecOO:BOOL=ON -DTrilinos_ENABLE_Belos:BOOL=ON -DBelos_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Epetra:BOOL=ON -DEpetra_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_EpetraExt:BOOL=ON -DTrilinos_ENABLE_Galeri:BOOL=ON -DTrilinos_ENABLE_GlobiPack:BOOL=ON -DTrilinos_ENABLE_Ifpack:BOOL=ON -DIfpack_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Ifpack2:BOOL=ON -DTrilinos_ENABLE_Intrepid:BOOL=ON -DTrilinos_ENABLE_Intrepid2:BOOL=ON -DTrilinos_ENABLE_Isorropia:BOOL=ON -DTrilinos_ENABLE_Kokkos:BOOL=ON -DKokkosCore_ENABLE_TESTS:BOOL=OFF -DKokkos_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_KokkosKernels:BOOL=ON -DKokkosKernels_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Komplex:BOOL=ON -DTrilinos_ENABLE_ML:BOOL=ON -DTrilinos_ENABLE_Moertel:BOOL=ON -DTrilinos_ENABLE_MueLu:BOOL=ON -DMueLu_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_NOX:BOOL=ON -DNOX_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_OptiPack:BOOL=ON -DTrilinos_ENABLE_Pamgen:BOOL=ON -DTrilinos_ENABLE_Phalanx:BOOL=ON -DTrilinos_ENABLE_Pike:BOOL=ON -DTrilinos_ENABLE_Piro:BOOL=ON -DPiro_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Pliris:BOOL=ON -DTrilinos_ENABLE_ROL:BOOL=ON -DTrilinos_ENABLE_RTOp:BOOL=ON -DTrilinos_ENABLE_Rythmos:BOOL=ON -DTrilinos_ENABLE_Sacado:BOOL=ON -DTrilinos_ENABLE_Shards:BOOL=ON -DTrilinos_ENABLE_ShyLU:BOOL=ON -DTrilinos_ENABLE_Stokhos:BOOL=ON -DTrilinos_ENABLE_Stratimikos:BOOL=ON -DStratimikos_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Teko:BOOL=ON -DTrilinos_ENABLE_Teuchos:BOOL=ON -DTeuchos_ENABLE_TESTS:BOOL=OFF -DTeuchosComm_ENABLE_TESTS:BOOL=OFF -DTeuchosCore_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Thyra:BOOL=ON -DTrilinos_ENABLE_Tpetra:BOOL=ON -DTrilinos_ENABLE_TrilinosCouplings:BOOL=ON -DTrilinos_ENABLE_Triutils:BOOL=ON -DTrilinos_ENABLE_Xpetra:BOOL=ON -DXpetra_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Zoltan:BOOL=ON -DZoltan_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Zoltan2:BOOL=ON -DZoltan2_ENABLE_TESTS:BOOL=OFF -DTrilinos_ENABLE_Gtest:BOOL=OFF -DTrilinos_ENABLE_MiniTensor:BOOL=OFF -DTrilinos_ENABLE_MOOCHO:BOOL=OFF -DTrilinos_ENABLE_SEACAS:BOOL=OFF -DTrilinos_ENABLE_STK:BOOL=OFF -DTrilinos_ENABLE_Tempus:BOOL=OFF -DTPL_ENABLE_BinUtils:BOOL=OFF -DTPL_ENABLE_Boost:BOOL=ON -DTPL_ENABLE_HDF5:BOOL=ON -DHDF5_INCLUDE_DIRS:PATH=/usr/include/hdf5/openmpi/ -DHDF5_LIBRARY_DIRS:PATH=/usr/lib/x86_64-linux-gnu/hdf5/openmpi/ -DTPL_ENABLE_Matio:BOOL=OFF -DTPL_ENABLE_MATLAB:BOOL=OFF -DTPL_ENABLE_MPI:BOOL=ON -DTPL_ENABLE_MUMPS:BOOL=ON -DTPL_ENABLE_Netcdf:BOOL=OFF -DTPL_ENABLE_ParMETIS:BOOL=OFF -DTPL_ENABLE_Scotch:BOOL=ON -DScotch_INCLUDE_DIRS:PATH=/usr/include/scotch/ -DTPL_ENABLE_SuperLU:BOOL=OFF -DTPL_ENABLE_TBB:BOOL=ON -DTPL_ENABLE_X11:BOOL=OFF -DTPL_ENABLE_Zlib:BOOL=ON .. returned exit code 1
> make[1]: *** [debian/rules:96: configure-stamp] Error 25
The full build log is available from:
http://qa-logs.debian.net/2022/06/24/trilinos_13.2.0-1_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20220624;users=lucas@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20220624&fusertaguser=lucas@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results
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.
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