Your message dated Thu, 18 Jun 2009 05:17:10 +0000
with message-id <e1mh9zq-0001c9...@ries.debian.org>
and subject line Bug#531522: fixed in openmpi 1.3.2-2.1
has caused the Debian Bug report #531522,
regarding libopenmpi-dev: mpicc segfaults under fakeroot
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.)
--
531522: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=531522
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: gromacs
Version: 4.0.5-2
Severity: serious
Hi,
There was an error while trying to autobuild your package:
> Start Time: 20090601-0920
[...]
> Build-Depends: debhelper (>= 5.0.0), dpatch, libfftw3-dev, libmpich1.0-dev
> (>= 1.2.7-6), lam4-dev, libopenmpi-dev (>= 1.2.4-5) [alpha amd64 i386 ia64
> powerpc kfreebsd-i386 kfreebsd-amd64 hurd-i386], lesstif2-dev, libxt-dev,
> libsm-dev, libice-dev, libxext-dev, libxp-dev, libx11-dev, zlib1g-dev,
> libgsl0-dev, gfortran [alpha], autotools-dev (>= 20070725.1), autoconf,
> automake (>= 1:1.10), libtool
[...]
> Toolchain package versions: libc6-dev_2.9-13 linux-libc-dev_2.6.29-5
> g++-4.3_4.3.3-10 gcc-4.3_4.3.3-10 binutils_2.19.1-1 libstdc++6_4.4.0-5
> libstdc++6-4.3-dev_4.3.3-10
>
[...]
> dh_shlibdeps -pgromacs-mpich -L gromacs-mpich -l debian/gromacs-mpich/usr/lib
> dpkg-shlibdeps: warning: dependency on libnsl.so.1 could be avoided if
> "debian/gromacs-mpich/usr/lib/libmd_mpi_d_mpich.so.5.0.0
> debian/gromacs-mpich/usr/lib/libgmx_mpi_d_mpich.so.5.0.0
> debian/gromacs-mpich/usr/lib/libmd_mpi_mpich.so.5.0.0
> debian/gromacs-mpich/usr/bin/mdrun_mpi.mpich
> debian/gromacs-mpich/usr/bin/mdrun_mpi_d.mpich
> debian/gromacs-mpich/usr/lib/libgmx_mpi_mpich.so.5.0.0" were not uselessly
> linked against it (they use none of its symbols).
> dpkg-shlibdeps: warning: dependency on librt.so.1 could be avoided if
> "debian/gromacs-mpich/usr/lib/libmd_mpi_d_mpich.so.5.0.0
> debian/gromacs-mpich/usr/lib/libgmx_mpi_d_mpich.so.5.0.0
> debian/gromacs-mpich/usr/lib/libmd_mpi_mpich.so.5.0.0
> debian/gromacs-mpich/usr/bin/mdrun_mpi.mpich
> debian/gromacs-mpich/usr/bin/mdrun_mpi_d.mpich
> debian/gromacs-mpich/usr/lib/libgmx_mpi_mpich.so.5.0.0" were not uselessly
> linked against it (they use none of its symbols).
> dh_shlibdeps -pgromacs-openmpi -L gromacs-openmpi -l
> debian/gromacs-openmpi/usr/lib
> dpkg-shlibdeps: error: couldn't find library libmd_mpi_d_openmpi.so.5 needed
> by debian/gromacs-openmpi/usr/bin/mdrun_mpi_d.openmpi (ELF format:
> 'elf64-x86-64'; RPATH: '').
> Note: libraries are not searched in other binary packages that do not have
> any shlibs or symbols file.
> To help dpkg-shlibdeps find private libraries, you might need to set
> LD_LIBRARY_PATH.
> dh_shlibdeps: dpkg-shlibdeps returned exit code 2
> make: *** [binary-arch] Error 1
> dpkg-buildpackage: error: /usr/bin/fakeroot debian/rules binary-arch gave
> error exit status 2
A full build log can be found at:
http://buildd.debian.org/build.php?arch=amd64&pkg=gromacs&ver=4.0.5-2+b1
Kurt
--- End Message ---
--- Begin Message ---
Source: openmpi
Source-Version: 1.3.2-2.1
We believe that the bug you reported is fixed in the latest version of
openmpi, which is due to be installed in the Debian FTP archive:
libopenmpi-dbg_1.3.2-2.1_amd64.deb
to pool/main/o/openmpi/libopenmpi-dbg_1.3.2-2.1_amd64.deb
libopenmpi-dev_1.3.2-2.1_amd64.deb
to pool/main/o/openmpi/libopenmpi-dev_1.3.2-2.1_amd64.deb
libopenmpi1.3_1.3.2-2.1_amd64.deb
to pool/main/o/openmpi/libopenmpi1.3_1.3.2-2.1_amd64.deb
openmpi-bin_1.3.2-2.1_amd64.deb
to pool/main/o/openmpi/openmpi-bin_1.3.2-2.1_amd64.deb
openmpi-common_1.3.2-2.1_all.deb
to pool/main/o/openmpi/openmpi-common_1.3.2-2.1_all.deb
openmpi-doc_1.3.2-2.1_all.deb
to pool/main/o/openmpi/openmpi-doc_1.3.2-2.1_all.deb
openmpi_1.3.2-2.1.diff.gz
to pool/main/o/openmpi/openmpi_1.3.2-2.1.diff.gz
openmpi_1.3.2-2.1.dsc
to pool/main/o/openmpi/openmpi_1.3.2-2.1.dsc
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 531...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Steve M. Robbins <s...@debian.org> (supplier of updated openmpi 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...@debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Format: 1.8
Date: Wed, 17 Jun 2009 22:03:31 -0500
Source: openmpi
Binary: openmpi-bin libopenmpi-dev libopenmpi1.3 openmpi-common openmpi-doc
libopenmpi-dbg
Architecture: source amd64 all
Version: 1.3.2-2.1
Distribution: unstable
Urgency: low
Maintainer: Debian OpenMPI Maintainers
<pkg-openmpi-maintain...@lists.alioth.debian.org>
Changed-By: Steve M. Robbins <s...@debian.org>
Description:
libopenmpi-dbg - high performance message passing library -- debug library
libopenmpi-dev - high performance message passing library -- header files
libopenmpi1.3 - high performance message passing library -- shared library
openmpi-bin - high performance message passing library -- binaries
openmpi-common - high performance message passing library -- common files
openmpi-doc - high performance message passing library -- man pages
Closes: 531522
Changes:
openmpi (1.3.2-2.1) unstable; urgency=low
.
* NMU
* opal/mca/memory/ptmalloc2/hooks.c: Add check for environment variable
OMPI_MCA_disable_memory_allocator. If set, avoid setting up malloc
hooks and avoid stat() calls from the malloc init hook.
Closes: #531522.
Checksums-Sha1:
b005208fce05862958478b565e8fbc7b07e3ec98 1544 openmpi_1.3.2-2.1.dsc
2b4166168f1cc54282ed7be1eb04c6b589baeb44 20572 openmpi_1.3.2-2.1.diff.gz
af8d7ac8bbe7bd6d6b50281ec5ccbb62a8fec20f 136200 openmpi-bin_1.3.2-2.1_amd64.deb
a221bb2cb7afada6268c726f4869ad1e1158b547 2566282
libopenmpi-dev_1.3.2-2.1_amd64.deb
69e4413166336d41db44d3b4f80ce8a0c9a1e083 1251992
libopenmpi1.3_1.3.2-2.1_amd64.deb
94d72bf92cc588a2dfac4ae0213e304e14c5a529 5311632
libopenmpi-dbg_1.3.2-2.1_amd64.deb
343bff71a9247b095b932ae97c444f4596857e92 77044 openmpi-common_1.3.2-2.1_all.deb
1d09e1376593ceb1f3e33656a7e6f2b76f43b5cc 461922 openmpi-doc_1.3.2-2.1_all.deb
Checksums-Sha256:
eb1dab6211724d4e908c6536f399b9724fe1fa08e3a7f74a84880a4901d90fe6 1544
openmpi_1.3.2-2.1.dsc
3156c932a7586fe3b5b4f70d1cc15be4587a675e4853b92c8264d5d378443ec7 20572
openmpi_1.3.2-2.1.diff.gz
0b757c62b8c36dd0167bfabd46b6a7c41fc1bc65a7e7ae94cc07d0574800ce8f 136200
openmpi-bin_1.3.2-2.1_amd64.deb
eea4e22aa7344a4cbb7704d0f2f3911286d058985f4af46ec8100a21c66f2788 2566282
libopenmpi-dev_1.3.2-2.1_amd64.deb
712e1f1687187a1a31028432716700cf4a2c6d6d8ba26802752a1ef4d1ad0445 1251992
libopenmpi1.3_1.3.2-2.1_amd64.deb
94f2b8f62aa5d123509fe4656c8f8da3a838645534923ce21e06b249a911fbb7 5311632
libopenmpi-dbg_1.3.2-2.1_amd64.deb
927fa9064379244273046caf455e25cf372e672811598db57f235ee321e3a2cc 77044
openmpi-common_1.3.2-2.1_all.deb
1b645de6a47afc8c3c03d25836b80bd544898c0382663f30c36722a41dd2c7e7 461922
openmpi-doc_1.3.2-2.1_all.deb
Files:
6633af4595819fe8133f4da6578f72ca 1544 net extra openmpi_1.3.2-2.1.dsc
f0b17362d84843a45287a053cf5becaa 20572 net extra openmpi_1.3.2-2.1.diff.gz
13ea5db75a123706a3b33fb82308c1f8 136200 net extra
openmpi-bin_1.3.2-2.1_amd64.deb
32844c6d062ca07ea376f9c5733c53a3 2566282 libdevel extra
libopenmpi-dev_1.3.2-2.1_amd64.deb
78dd9f37fb269df1f19e8d6519233058 1251992 libs extra
libopenmpi1.3_1.3.2-2.1_amd64.deb
e951c830289612c97654b4d8dd45eb02 5311632 debug extra
libopenmpi-dbg_1.3.2-2.1_amd64.deb
6c55fc474f1ad32f1ef110343383a311 77044 net extra
openmpi-common_1.3.2-2.1_all.deb
10ab2c4643ca020eb7766b8b169088d4 461922 doc extra openmpi-doc_1.3.2-2.1_all.deb
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--- End Message ---
