[Debian-med-packaging] Bug#811815: murasaki: FTBFS with GCC 6: no match for
Andreas Tille
andreas at an3as.eu
Wed Jan 20 11:56:23 UTC 2016
Upstream address bounced - so this is something for the C++ programmers
in the Debian Med team ... patches welcome.
Andreas.
On Wed, Jan 20, 2016 at 10:42:25AM +0100, Andreas Tille wrote:
> Hi Kris,
>
> I'm not sure whether you are aware that murasaki is packaged for Debian
> by the Debian Med team. Over time we collected a set of patches you
> might be interested in:
>
> https://anonscm.debian.org/viewvc/debian-med/trunk/packages/murasaki/trunk/debian/patches/
>
> We have not yet developed a patch for the build issue with gcc 6 you can
> read below. Feel free to contact us about the problem via the bug
> report e-mail if you have any questions.
>
> Kind regards and thanks for providing murasaki as Free Software
>
> Andreas.
>
> On Tue, Jan 19, 2016 at 06:16:57PM -0800, Martin Michlmayr wrote:
> > Package: murasaki
> > Version: 1.68.6-4
> > Severity: important
> > User: debian-gcc at lists.debian.org
> > Usertags: ftbfs-gcc-6 gcc-6-no-match
> >
> > This package fails to build with GCC 6. GCC 6 has not been released
> > yet, but it's expected that GCC 6 will become the default compiler for
> > stretch.
> >
> > Note that only the first error is reported; there might be more. You
> > can find a snapshot of GCC 6 in experimental. To build with GCC 6,
> > you can set CC=gcc-6 CXX=g++-6 explicitly.
> >
> > You may be able to find out more about this issue at
> > https://gcc.gnu.org/gcc-6/changes.html
> >
> > > sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on dl580gen9-02.hlinux
> > ...
> > > mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c dinkymath.cc
> > > In file included from /usr/lib/openmpi/include/mpi.h:253:0,
> > > from murasaki_mpi.h:33,
> > > from shmvector.hh:30,
> > > from sequence.h:44,
> > > from murasaki.h:24,
> > > from dinkymath.cc:27:
> > > /usr/lib/openmpi/include/mpi_portable_platform.h:374:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
> > > _STRINGIFY(__GNUC__)"."_STRINGIFY(__GNUC_MINOR__)"."_STRINGIFY(__GNUC_PATCHLEVEL__)
> > > ^
> > >
> > > /usr/lib/openmpi/include/mpi_portable_platform.h:374:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
> > > _STRINGIFY(__GNUC__)"."_STRINGIFY(__GNUC_MINOR__)"."_STRINGIFY(__GNUC_PATCHLEVEL__)
> > > ^
> > >
> > > dinkymath.cc: In function 'std::__cxx11::string littleEndianStr(unsigned int, int)':
> > > dinkymath.cc:40:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
> > > int last=0;
> > > ^~~~
> > >
> > > dinkymath.cc: In function 'std::__cxx11::string littleEndianPat(unsigned int, int)':
> > > dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
> > > int last=0;
> > > ^~~~
> > >
> > > mpicxx -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c sequence.cc
> > > In file included from /usr/lib/openmpi/include/mpi.h:253:0,
> > > from murasaki_mpi.h:33,
> > > from shmvector.hh:30,
> > > from sequence.h:44,
> > > from murasaki.h:24,
> > > from sequence.cc:28:
> > > /usr/lib/openmpi/include/mpi_portable_platform.h:374:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
> > > _STRINGIFY(__GNUC__)"."_STRINGIFY(__GNUC_MINOR__)"."_STRINGIFY(__GNUC_PATCHLEVEL__)
> > > ^
> > >
> > > /usr/lib/openmpi/include/mpi_portable_platform.h:374:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
> > > _STRINGIFY(__GNUC__)"."_STRINGIFY(__GNUC_MINOR__)"."_STRINGIFY(__GNUC_PATCHLEVEL__)
> > > ^
> > >
> > > sequence.cc: In destructor 'Sequence::~Sequence()':
> > > sequence.cc:377:123: warning: throw will always call terminate() [-Wterminate]
> > > throw MurasakiException("Couldn't mark System V IPC shared memory region for deletion for sequence "+name+strerror(errno));
> > > ^
> > >
> > > sequence.cc:377:123: note: in C++11 destructors default to noexcept
> > > sequence.cc: In destructor 'BitSequence::~BitSequence()':
> > > sequence.cc:1394:133: warning: throw will always call terminate() [-Wterminate]
> > > throw MurasakiException("Couldn't detach System V shared memory region for "+(seq ? seq->filename:string("(anon)"))+strerror(errno));
> > > ^
> > >
> > > sequence.cc:1394:133: note: in C++11 destructors default to noexcept
> > > sequence.cc: In member function 'void Hash::writeHistogram(std::ostream&)':
> > > sequence.cc:2048:8: error: no match for 'operator!=' (operand types are 'std::ostream {aka std::basic_ostream<char>}' and 'std::ostream {aka std::basic_ostream<char>}')
> > > if(of!=cerr)
> > > ~~^~~~~~
> > >
> > > sequence.cc:2048:8: note: candidate: operator!=(int, int) <built-in>
> > > sequence.cc:2048:8: note: no known conversion for argument 2 from 'std::ostream {aka std::basic_ostream<char>}' to 'int'
> > > In file included from /usr/include/c++/6/bits/stl_algobase.h:67:0,
> > > from /usr/include/c++/6/bits/stl_tree.h:63,
> > > from /usr/include/c++/6/set:60,
> > > from cmultiset.h:33,
> > > from sequence.h:30,
> > > from murasaki.h:24,
> > > from sequence.cc:28:
> > > /usr/include/c++/6/bits/stl_iterator.h:863:5: note: candidate: template<class _IteratorL, class _IteratorR, class _Container> bool __gnu_cxx::operator!=(const __gnu_cxx::__normal_iterator<_IteratorL, _Container>&, const __gnu_cxx::__normal_iterator<_IteratorR, _Container>&)
> > > operator!=(const __normal_iterator<_IteratorL, _Container>& __lhs,
> > > ^~~~~~~~
> >
> > _______________________________________________
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> > Debian-med-packaging at lists.alioth.debian.org
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> >
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