Your message dated Fri, 10 Aug 2012 14:47:14 +0000
with message-id <[email protected]>
and subject line Bug#678175: fixed in mrbayes 3.2.1+dfsg-2
has caused the Debian Bug report #678175,
regarding mrbayes: FTBFS with ld --as-needed
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.
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--
678175: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=678175
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: mrbayes
Version: 3.2.1+dfsg-1
Severity: normal
Tags: upstream patch
User: [email protected]
Usertags: ld-as-needed
mrbayes fails to build when --as-needed linker option is enabled,
because of incorrect order of parameters passed to ld. Here's a log of
failed build in Ubuntu:
https://launchpad.net/ubuntu/+source/mrbayes/3.2.1+dfsg-1/+build/3447662/+files/buildlog_ubuntu-quantal-i386.mrbayes_3.2.1%2Bdfsg-1_FAILEDTOBUILD.txt.gz
See also
http://wiki.debian.org/ToolChain/DSOLinking#Only_link_with_needed_libraries
The attached patch was used in Ubuntu to fix the problem.
https://launchpad.net/ubuntu/+source/mrbayes/3.2.1+dfsg-1ubuntu1
Note that LIBS="-Wl,--as-needed" in debian/rules doesn't actually enable
this setting. That can be done with something like "export LDFLAGS +=
-Wl,--as-needed".
Description: fix FTBFS with --as-needed linker option
This way, libraries will be added to ld call after object files.
Author: Ilya Barygin <[email protected]>
--- mrbayes-3.2.1+dfsg.orig/src/Makefile.in
+++ mrbayes-3.2.1+dfsg/src/Makefile.in
@@ -2,7 +2,7 @@ srcdir = @srcdir@
RM = rm
CC = @CC@
CFLAGS = @CFLAGS@ -DUSECONFIG_H
-LDFLAGS = @LDFLAGS@ -lm
+LDLIBS = @LDFLAGS@ -lm
INSTALL = @INSTALL@
SRC = bayes.c command.c mbmath.c mcmc.c model.c plot.c sump.c sumt.c tree.c utils.c mbbeagle.c best.c
--- End Message ---
--- Begin Message ---
Source: mrbayes
Source-Version: 3.2.1+dfsg-2
We believe that the bug you reported is fixed in the latest version of
mrbayes, 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 [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated mrbayes 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 [email protected])
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Hash: SHA1
Format: 1.8
Date: Fri, 10 Aug 2012 15:37:50 +0200
Source: mrbayes
Binary: mrbayes mrbayes-mpi mrbayes-dbg mrbayes-doc
Architecture: source amd64 all
Version: 3.2.1+dfsg-2
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
mrbayes - Bayesian Inference of Phylogeny
mrbayes-dbg - Bayesian Inference of Phylogeny - debug symbols
mrbayes-doc - Bayesian Inference of Phylogeny - manual
mrbayes-mpi - Bayesian Inference of Phylogeny - mpi version
Closes: 671666 678175
Changes:
mrbayes (3.2.1+dfsg-2) unstable; urgency=low
.
[ Andreas Tille ]
* debian/upstream: Add publication data
* debian/patches/as-needed.patch: Enable building using --as-needed
thanks for the patch to Ilya Barygin <[email protected]>
Closes: #678175
* debian/control: Dropped quilt from Build-Depends
* debhelper 9 (control+compat)
* debian/rules: use xz compression
.
[ Charles Plessy ]
* debian/control: corrected a typo (Closes: #671666).
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