Your message dated Wed, 26 Jun 2013 15:27:47 +0000
with message-id <e1urrdl-0007wl...@franck.debian.org>
and subject line Bug#713461: fixed in theseus 2.0.6-1
has caused the Debian Bug report #713461,
regarding theseus: FTBFS: ld: ./lib/libdistfit.a(chisqr_dist.o): undefined
reference to symbol 'lgamma_r@@GLIBC_2.2.5'
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.)
--
713461: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=713461
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: theseus
Version: 1.6.2-2
Severity: serious
Tags: jessie sid
User: debian...@lists.debian.org
Usertags: qa-ftbfs-20130620 qa-ftbfs
Justification: FTBFS on amd64
Hi,
During a rebuild of all packages in sid, your package failed to build on
amd64.
Maybe you need to add explicitly the offending lib to LD flags.
Relevant part:
> /usr/bin/gcc -O3 -ffast-math -fstrict-aliasing -funroll-loops
> -fomit-frame-pointer -g -fstack-protector --param=ssp-buffer-size=4 -Wformat
> -Werror=format-security -Werror -Wno-error=unused-result -Wall -pedantic
> -std=c99 -D_FORTIFY_SOURCE=2 -Wl,-z,relro -L./lib theseus.o CovMat.o
> DistMat.o Embed.o Error.o FragCds.o FragDist.o HierarchVars.o lodmats.o
> MultiPose.o MultiPose2MSA.o MultiPoseMix.o PCAstats.o pdbIO.o pdbMalloc.o
> pdbStats.o pdbUtils.o QuarticHornFrag.o RandCds.o pdbSSM.o ProcGSLSVD.o
> ProcGSLSVDOcc.o ProcJacobiSVD.o GibbsMet.o qcprot.o termcol.o theseuslib.o
> -lgsl -lgslcblas -ldistfit -lmsa -ldssplite -ldltmath -lDLTutils -ltheseus
> -lpthread -o theseus
> /usr/bin/ld: ./lib/libdistfit.a(chisqr_dist.o): undefined reference to symbol
> 'lgamma_r@@GLIBC_2.2.5'
> /lib/x86_64-linux-gnu/libm.so.6: error adding symbols: DSO missing from
> command line
> collect2: error: ld returned 1 exit status
The full build log is available from:
http://aws-logs.debian.net/ftbfs-logs/2013/06/20/theseus_1.6.2-2_unstable.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: theseus
Source-Version: 2.0.6-1
We believe that the bug you reported is fixed in the latest version of
theseus, 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 713...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated theseus 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: SHA1
Format: 1.8
Date: Wed, 26 Jun 2013 16:34:53 +0200
Source: theseus
Binary: theseus
Architecture: source amd64
Version: 2.0.6-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
theseus - superimpose macromolecules using maximum likelihood
Closes: 713461
Changes:
theseus (2.0.6-1) unstable; urgency=low
.
* New upstream version
- Adapt patches
- debian/patches/30_fix_gcc_options.patch: Enable build on Linux
Closes: #713461
* debian/control:
- Remove DM-Upload-Allowed
- cme fix dpkg-control
* debian/rules: use xz compression
Checksums-Sha1:
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1d36cc49be837d94dc6f1e6a3a970cfc63c587db 1257560 theseus_2.0.6.orig.tar.gz
1bd74ce6de6db805b63b99d9569b37ac7b4bfc13 12459 theseus_2.0.6-1.debian.tar.gz
5dca801df3d91ecc018162f5e826fc19da2dab2e 1259180 theseus_2.0.6-1_amd64.deb
Checksums-Sha256:
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theseus_2.0.6-1.dsc
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theseus_2.0.6.orig.tar.gz
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theseus_2.0.6-1.debian.tar.gz
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theseus_2.0.6-1_amd64.deb
Files:
3418e563bff1a96e8c870a97afd32c83 1338 science optional theseus_2.0.6-1.dsc
61775e01646ac2038b442cfd1cae38cb 1257560 science optional
theseus_2.0.6.orig.tar.gz
fb6e4159e2968f4e02c3b70998a50810 12459 science optional
theseus_2.0.6-1.debian.tar.gz
2c34e1b8cadfc9021fc49d37a4ffa287 1259180 science optional
theseus_2.0.6-1_amd64.deb
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--- End Message ---