Your message dated Fri, 24 Apr 2009 22:42:10 +0000 with message-id <e1lxu5y-0000aa...@ries.debian.org> and subject line Bug#512616: fixed in openmpi 1.3.2-1 has caused the Debian Bug report #512616, regarding [openmpi] missing symbols? 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.) -- 512616: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=512616 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: openmpi Version: 1.3-1 Severity: serious --- Please enter the report below this line. --- Hello I just upgraded to openmpi 1.3-1. The compilation of my codes went fine. The linking stage sometimes failed with undefined reference to `MPI::Win::Set_errhandler(MPI::Errhandler const&)' undefined reference to `MPI::Comm::Set_errhandler(MPI::Errhandler const&)' in some external libs (trilinos) using openmpi When linking is ok, runtime fails with for example symbol lookup error: /usr/lib/libHYPRE_FEI.so.2.0.0: undefined symbol: _ZN3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE After playing with nm I got nm /usr/lib/openmpi/lib/libmpi_cxx.a 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZN3MPI6Status9Set_errorEi 00000000 W _ZNK3MPI3Win14Set_errhandlerERKNS_10ErrhandlerE 00000000 W _ZNK3MPI4Comm14Set_errhandlerERKNS_10ErrhandlerE which mean that the missing symbol is registered as a weak symbol. PS: I have -lmpi++ -lmpi at the linking stage and libmpi_cxx.* are present in /usr/lib/openmpi/lib Am I missing something with 1.3? shouldn't it be a drop in replacement ? --- System information. --- Architecture: i386 Kernel: Linux 2.6.26-1-686-bigmem Debian Release: 5.0 500 unstable ftp.fr.debian.org 500 testing security.debian.org 500 hardy ppa.launchpad.net 500 UNRELEASED kde42.debian.net --- Package information. --- Depends (Version) | Installed =======================-+-=========== | -- Debian Developer Annecy - Grenoble Scientific computing related software
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--- Begin Message ---Source: openmpi Source-Version: 1.3.2-1 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_1.3.2-1_amd64.deb to pool/main/o/openmpi/libopenmpi-dbg_1.3.2-1_amd64.deb libopenmpi-dev_1.3.2-1_amd64.deb to pool/main/o/openmpi/libopenmpi-dev_1.3.2-1_amd64.deb libopenmpi1.3_1.3.2-1_amd64.deb to pool/main/o/openmpi/libopenmpi1.3_1.3.2-1_amd64.deb openmpi-bin_1.3.2-1_amd64.deb to pool/main/o/openmpi/openmpi-bin_1.3.2-1_amd64.deb openmpi-common_1.3.2-1_all.deb to pool/main/o/openmpi/openmpi-common_1.3.2-1_all.deb openmpi-doc_1.3.2-1_all.deb to pool/main/o/openmpi/openmpi-doc_1.3.2-1_all.deb openmpi_1.3.2-1.diff.gz to pool/main/o/openmpi/openmpi_1.3.2-1.diff.gz openmpi_1.3.2-1.dsc to pool/main/o/openmpi/openmpi_1.3.2-1.dsc openmpi_1.3.2.orig.tar.gz to pool/main/o/openmpi/openmpi_1.3.2.orig.tar.gz 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 512...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Manuel Prinz <man...@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: Thu, 23 Apr 2009 14:01:21 +0200 Source: openmpi Binary: openmpi-bin libopenmpi-dev libopenmpi1.3 openmpi-common openmpi-doc libopenmpi-dbg Architecture: source amd64 all Version: 1.3.2-1 Distribution: experimental Urgency: low Maintainer: Debian OpenMPI Maintainers <pkg-openmpi-maintain...@lists.alioth.debian.org> Changed-By: Manuel Prinz <man...@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: 510845 512616 515116 517543 519725 520597 522153 Changes: openmpi (1.3.2-1) experimental; urgency=low . * New upstream release. (Closes: #520597, #515116) - Manpage and VampirTrace patches removed, included upstream. * Fixed build issues on Alpha. Huge thanks to Arthur Loiret for providing access to his machines for testing! (Closes: #510845, #517543) * Fixed build issues on Sparc. (Closes: #519725) * Fixed manpage-has-errors-from-man lintian warnings. * Faked SONAME change by renaming library package. (Closes: #512616) * Made libopenmpi-dev depend on libibverbs-dev. (Closes: #522153) * Support for "nocheck" build option in debian/rules. * Updated Standards-Version in debian/control. * Changed section of libopenmpi-dbg to "debug". * Updated debian/copyright. . * Dirk Eddelbuettel removed himself from Uploaders. The team thanks Dirk for his long-term contribution and effort to get Open MPI back to life. I personally thank Dirk for encouraging me to become a Debian Developer and his support and mentoring on that way and beyond. 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