Your message dated Mon, 18 Mar 2019 12:21:43 +0000
with message-id <e1h5rgx-000ijj...@fasolo.debian.org>
and subject line Bug#924837: fixed in mpich 3.3-3
has caused the Debian Bug report #924837,
regarding adios: FTBFS: mpicxx.h:22:4: error: #error 'Please use the same
version of GCC and g++ for compiling MPICH and user MPI programs'
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.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
924837: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=924837
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: adios
Version: 1.13.1-16
Severity: serious
Tags: buster sid
User: debian...@lists.debian.org
Usertags: qa-ftbfs-20190315 qa-ftbfs
Justification: FTBFS in buster on amd64
Hi,
During a rebuild of all packages in buster (in a buster chroot, not a
sid chroot), your package failed to build on amd64.
Relevant part (hopefully):
> x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions
> -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall
> -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g
> -fdebug-prefix-map=/build/python2.7-UboFgi/python2.7-2.7.16~rc1=.
> -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -g -O2
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
> build/temp.linux-x86_64-2.7/adios.o -L../../debian/tmp/usr/lib
> -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu/hdf5/serial -L/sr/lib
> -ladios_nompi -libverbs -lnetcdf -lhdf5_hl -lhdf5 -lz -lglib-2.0 -lz -lbz2
> -lsz -llz4 -lblosc -lm -lpthread -lrt -o
> build/lib.linux-x86_64-2.7/adios/adios.so
> python setup_mpi.py build
> running build
> running build_src
> running build_py
> creating build/lib.linux-x86_64-2.7/adios_mpi
> copying src_mpi/__init__.py -> build/lib.linux-x86_64-2.7/adios_mpi
> creating build/lib.linux-x86_64-2.7/adios_mpi/_hl
> copying _hl/selections.py -> build/lib.linux-x86_64-2.7/adios_mpi/_hl
> copying _hl/__init__.py -> build/lib.linux-x86_64-2.7/adios_mpi/_hl
> running build_ext
> MPI configuration: [mpi] from 'mpi.cfg'
> MPI C compiler: /usr/bin/mpicc
> MPI C++ compiler: /usr/bin/mpicxx
> MPI F77 compiler: /usr/bin/mpif77
> MPI F90 compiler: /usr/bin/mpif90
> building 'adios_mpi.adios_mpi' extension
> /usr/bin/mpicc -fPIC -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall
> -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -I/usr/lib/python2.7/dist-packages/numpy/core/include
> -I../../src/public -I/usr/include
> -I/usr/lib/x86_64-linux-gnu/netcdf/mpi/include -I/usr/include/hdf5/openmpi
> -I/usr/include -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include
> -I/usr/include -I/usr/include -I/usr/include -I/sr/include -I/usr/include
> -I/sr/include -I/usr/include -I/usr/include/python2.7 -c adios_mpi.cpp -o
> build/temp.linux-x86_64-2.7/adios_mpi.o -Wno-unused-function
> -Wno-uninitialized
> cc1plus: warning: command line option '-Wstrict-prototypes' is valid for
> C/ObjC but not for C++
> In file included from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
> from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
> from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
> from adios_mpi.cpp:629:
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
> warning: #warning "Using deprecated NumPy API, disable it with " "#define
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it with " \
> ^~~~~~~
> /usr/bin/mpicxx -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro
> -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes
> -Wdate-time -D_FORTIFY_SOURCE=2 -g
> -fdebug-prefix-map=/build/python2.7-UboFgi/python2.7-2.7.16~rc1=.
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Werror=format-security -g -O2
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wl,-z,relro build/temp.linux-x86_64-2.7/adios_mpi.o
> -L../../debian/tmp/usr/lib -L/usr/lib/x86_64-linux-gnu
> -L/usr/lib/x86_64-linux-gnu/netcdf/mpi
> -L/usr/lib/x86_64-linux-gnu/hdf5/openmpi -L/sr/lib -ladios -lnetcdf -lhdf5_hl
> -lhdf5 -lz -libverbs -lglib-2.0 -lz -lbz2 -lsz -llz4 -lblosc -lm -lpthread -o
> build/lib.linux-x86_64-2.7/adios_mpi/adios_mpi.so
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/wrappers/numpy'
> # MPICH
> install -D -t debian/tmp/usr/lib build-mpich/src/*.a
> for p in python2.7 python3.7 ; do \
> ( cd build-mpich/numpy && \
> $p ./setup_mpi.py build_ext --mpicc=mpicc.mpich --mpicxx=mpicxx.mpich )
> ; \
> done
> running build_ext
> MPI configuration: [mpi] from 'mpi.cfg'
> MPI C compiler: /usr/bin/mpicc.mpich
> MPI C++ compiler: /usr/bin/mpicxx.mpich
> building 'adios_mpi.adios_mpi' extension
> creating build
> creating build/temp.linux-x86_64-2.7
> /usr/bin/mpicc.mpich -fPIC -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall
> -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -I/usr/lib/python2.7/dist-packages/numpy/core/include
> -I../../src/public -I/usr/include
> -I/usr/lib/x86_64-linux-gnu/netcdf/mpi/include -I/usr/include/hdf5/openmpi
> -I/usr/include -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include
> -I/usr/include -I/usr/include -I/usr/include -I/sr/include -I/usr/include
> -I/sr/include -I/usr/include -I/usr/include/python2.7 -c adios_mpi.cpp -o
> build/temp.linux-x86_64-2.7/adios_mpi.o -Wno-unused-function
> -Wno-uninitialized
> cc1plus: warning: command line option '-Wstrict-prototypes' is valid for
> C/ObjC but not for C++
> In file included from /usr/include/x86_64-linux-gnu/mpich/mpi.h:2241,
> from mpi-compat.h:7,
> from adios_mpi.cpp:537:
> /usr/include/x86_64-linux-gnu/mpich/mpicxx.h:22:4: error: #error 'Please use
> the same version of GCC and g++ for compiling MPICH and user MPI programs'
> # error 'Please use the same version of GCC and g++ for compiling MPICH and
> user MPI programs'
> ^~~~~
> In file included from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
> from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
> from
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
> from adios_mpi.cpp:541:
> /usr/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
> warning: #warning "Using deprecated NumPy API, disable it with " "#define
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it with " \
> ^~~~~~~
> Traceback (most recent call last):
> File "./setup_mpi.py", line 148, in <module>
> package_dir = {'adios_mpi': 'src_mpi', 'adios_mpi._hl': '_hl'},
> File "/<<PKGBUILDDIR>>/build-mpich/numpy/conf/mpidistutils.py", line 494,
> in setup
> return fcn_setup(**attrs)
> File "/usr/lib/python2.7/distutils/core.py", line 151, in setup
> dist.run_commands()
> File "/usr/lib/python2.7/distutils/dist.py", line 953, in run_commands
> self.run_command(cmd)
> File "/usr/lib/python2.7/distutils/dist.py", line 972, in run_command
> cmd_obj.run()
> File "/<<PKGBUILDDIR>>/build-mpich/numpy/conf/mpidistutils.py", line 1077,
> in run
> cmd_build_ext.build_ext.run(self)
> File "/usr/lib/python2.7/distutils/command/build_ext.py", line 340, in run
> self.build_extensions()
> File "/<<PKGBUILDDIR>>/build-mpich/numpy/conf/mpidistutils.py", line 1106,
> in build_extensions
> if not ext.optional: raise
> AttributeError: Extension instance has no attribute 'optional'
> running build_ext
> MPI configuration: [mpi] from 'mpi.cfg'
> MPI C compiler: /usr/bin/mpicc.mpich
> MPI C++ compiler: /usr/bin/mpicxx.mpich
> building 'adios_mpi.adios_mpi' extension
> creating build/temp.linux-x86_64-3.7
> /usr/bin/mpicc.mpich -fPIC -Wno-unused-result -Wsign-compare -DNDEBUG -g
> -fwrapv -O2 -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
> -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -I/usr/lib/python3/dist-packages/numpy/core/include
> -I../../src/public -I/usr/include
> -I/usr/lib/x86_64-linux-gnu/netcdf/mpi/include -I/usr/include/hdf5/openmpi
> -I/usr/include -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include
> -I/usr/include -I/usr/include -I/usr/include -I/sr/include -I/usr/include
> -I/sr/include -I/usr/include -I/usr/include/python3.7m -c adios_mpi.cpp -o
> build/temp.linux-x86_64-3.7/adios_mpi.o -Wno-unused-function
> -Wno-uninitialized
> In file included from /usr/include/x86_64-linux-gnu/mpich/mpi.h:2241,
> from mpi-compat.h:7,
> from adios_mpi.cpp:537:
> /usr/include/x86_64-linux-gnu/mpich/mpicxx.h:22:4: error: #error 'Please use
> the same version of GCC and g++ for compiling MPICH and user MPI programs'
> # error 'Please use the same version of GCC and g++ for compiling MPICH and
> user MPI programs'
> ^~~~~
> In file included from
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
> from
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
> from
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
> from adios_mpi.cpp:541:
> /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2:
> warning: #warning "Using deprecated NumPy API, disable it with " "#define
> NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it with " \
> ^~~~~~~
> error: command '/usr/bin/mpicc.mpich' failed with exit status 1
> make[1]: *** [debian/rules:123: override_dh_auto_build] Error 1
The full build log is available from:
http://aws-logs.debian.net/2019/03/15/adios_1.13.1-16_testing.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!
About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.
--- End Message ---
--- Begin Message ---
Source: mpich
Source-Version: 3.3-3
We believe that the bug you reported is fixed in the latest version of
mpich, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 924...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Alastair McKinstry <mckins...@debian.org> (supplier of updated mpich package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Mon, 18 Mar 2019 08:31:47 +0000
Source: mpich
Binary: libmpich-dev libmpich12 libmpich12-dbgsym mpich mpich-dbgsym mpich-doc
Architecture: source amd64 all
Version: 3.3-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Alastair McKinstry <mckins...@debian.org>
Description:
libmpich-dev - Development files for MPICH
libmpich12 - Shared libraries for MPICH
mpich - Implementation of the MPI Message Passing Interface standard
mpich-doc - Documentation for MPICH
Closes: 807666 924837
Changes:
mpich (3.3-3) unstable; urgency=medium
.
* Patch from Ana Guerrero Lopez, Andreas Beckann to remove obsolete
GCC check. Closes: #807666, #924837.
Checksums-Sha1:
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libmpich12-dbgsym_3.3-3_amd64.deb
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Checksums-Sha256:
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Files:
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libmpich-dev_3.3-3_amd64.deb
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libmpich12-dbgsym_3.3-3_amd64.deb
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libmpich12_3.3-3_amd64.deb
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mpich-dbgsym_3.3-3_amd64.deb
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mpich_3.3-3_amd64.buildinfo
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--- End Message ---
