Bug#673159 closed by Alexandre Mestiashvili <alex@biotec.tu-dresden.de> (Bug#673159: fixed in bowtie2 2.0.0-beta6-3)
This is an automatic notification regarding your Bug report
which was filed against the src:bowtie2 package:
#673159: bowtie2: FTBFS[{kfreebsd,hurd}-i386]: error: #error "SSE2 instruction set not enabled"
It has been closed by Alexandre Mestiashvili <alex@biotec.tu-dresden.de>.
Their explanation is attached below along with your original report.
If this explanation is unsatisfactory and you have not received a
better one in a separate message then please contact Alexandre Mestiashvili <alex@biotec.tu-dresden.de> by
replying to this email.
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673159: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=673159
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Contact owner@bugs.debian.org with problems
--- Begin Message ---
Source: bowtie2
Source-Version: 2.0.0-beta6-3
We believe that the bug you reported is fixed in the latest version of
bowtie2, which is due to be installed in the Debian FTP archive:
bowtie2-examples_2.0.0-beta6-3_all.deb
to main/b/bowtie2/bowtie2-examples_2.0.0-beta6-3_all.deb
bowtie2_2.0.0-beta6-3.debian.tar.gz
to main/b/bowtie2/bowtie2_2.0.0-beta6-3.debian.tar.gz
bowtie2_2.0.0-beta6-3.dsc
to main/b/bowtie2/bowtie2_2.0.0-beta6-3.dsc
bowtie2_2.0.0-beta6-3_amd64.deb
to main/b/bowtie2/bowtie2_2.0.0-beta6-3_amd64.deb
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 673159@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Alexandre Mestiashvili <alex@biotec.tu-dresden.de> (supplier of updated bowtie2 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 ftpmaster@debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Fri, 01 Jun 2012 21:58:49 +0200
Source: bowtie2
Binary: bowtie2 bowtie2-examples
Architecture: source amd64 all
Version: 2.0.0-beta6-3
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Alexandre Mestiashvili <alex@biotec.tu-dresden.de>
Description:
bowtie2 - ultrafast memory-efficient short read aligner
bowtie2-examples - Examples for bowtie2,
Closes: 673159
Changes:
bowtie2 (2.0.0-beta6-3) unstable; urgency=low
.
* normalized architecture detection.
For example kfreebsd-amd64 is detected as an amd64 architecture
and msse flag is set.(Previous commit was wrong) (Closes: #673159)
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Files:
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--- End Message ---
--- Begin Message ---
Package: src:bowtie2
Version: 2.0.0-beta6-1
Severity: serious
Tags: sid wheezy
User: debian-bsd@lists.debian.org
Usertags: kfreebsd
X-Debbugs-Cc: debian-bsd@lists.debian.org
Justification: fails to build from source (but built successfully in the past)
Hi!
Your package failed to build on the {hurd,kfreebsd}-i386 buildds:
/usr/bin/g++ -O3 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \
-fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat VERSION`\"" -DBUILD_HOST="\"`hostname`\"" -DBUILD_TIME="\"`date`\"" -DCOMPILER_VERSION="\"`/usr/bin/g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DBOWTIE_PTHREADS -DPREFETCH_LOCALITY=2 -DBOWTIE_MM -DBOWTIE2 -DNDEBUG -Wall \
\
-o bowtie2-align bt2_search.cpp \
ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp qual.cpp pat.cpp sam.cpp read_qseq.cpp aligner_seed_policy.cpp aligner_seed.cpp aligner_sw.cpp aligner_sw_driver.cpp aligner_cache.cpp aligner_result.cpp ref_coord.cpp mask.cpp pe.cpp aln_sink.cpp dp_framer.cpp scoring.cpp presets.cpp unique.cpp aligner_bt.cpp sse_util.cpp aligner_swsse.cpp outq.cpp aligner_swsse_loc_i16.cpp aligner_swsse_ee_i16.cpp aligner_swsse_loc_u8.cpp aligner_swsse_ee_u8.cpp bowtie_main.cpp \
-lpthread
In file included from aligner_sw.h:72:0,
from bt2_search.cpp:47:
[...]
Full build log at
https://buildd.debian.org/status/fetch.php?pkg=bowtie2&arch=kfreebsd-i386&ver=2.0.0-beta6-1&stamp=1337068947
Regards
Christoph
If you have further questions please mail debian-bsd@lists.debian.org
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--- End Message ---
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