Your message dated Wed, 30 Nov 2011 11:21:28 +0000
with message-id <[email protected]>
and subject line Bug#648803: fixed in bwa 0.6.1-1
has caused the Debian Bug report #648803,
regarding FTBFS: ksw.c:28:23: fatal error: emmintrin.h: No such file or
directory
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
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--
648803: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=648803
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: bwa
Version: 0.6.0-1
Severity: serious
Justification: fails to build from source
Unfortunately, bwa version 0.6.0 seems to include a header that is
specific to amd64. For instance:
bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with
attribute warn_unused_result [-Wunused-result]
bwtmisc.c: In function 'bwt_pac2bwt':
bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with
attribute warn_unused_result [-Wunused-result]
bwtmisc.c: In function 'bwa_seq_len':
bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with
attribute warn_unused_result [-Wunused-result]
gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro
-DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro
-DHAVE_PTHREAD ksw.c -o ksw.o
ksw.c:28:23: fatal error: emmintrin.h: No such file or directory
compilation terminated.
make[2]: *** [ksw.o] Error 1
make[2]: Leaving directory `/build/buildd-bwa_0.6.0-1-armel-HDdcYb/bwa-0.6.0'
dh_auto_build: make -j1 CFLAGS=-Wall -g -O2 -fstack-protector
--param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security
-D_FORTIFY_SOURCE=2 -Wl,-z,relro returned exit code 2
make[1]: *** [override_dh_auto_build] Error 2
make[1]: Leaving directory `/build/buildd-bwa_0.6.0-1-armel-HDdcYb/bwa-0.6.0'
make: *** [build] Error 2
--
Charles
--- End Message ---
--- Begin Message ---
Source: bwa
Source-Version: 0.6.1-1
We believe that the bug you reported is fixed in the latest version of
bwa, which is due to be installed in the Debian FTP archive:
bwa_0.6.1-1.debian.tar.gz
to main/b/bwa/bwa_0.6.1-1.debian.tar.gz
bwa_0.6.1-1.dsc
to main/b/bwa/bwa_0.6.1-1.dsc
bwa_0.6.1-1_amd64.deb
to main/b/bwa/bwa_0.6.1-1_amd64.deb
bwa_0.6.1.orig.tar.bz2
to main/b/bwa/bwa_0.6.1.orig.tar.bz2
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.
Charles Plessy <[email protected]> (supplier of updated bwa 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])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Wed, 30 Nov 2011 19:36:04 +0900
Source: bwa
Binary: bwa
Architecture: source amd64
Version: 0.6.1-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Charles Plessy <[email protected]>
Description:
bwa - Burrows-Wheeler Aligner
Closes: 648803
Changes:
bwa (0.6.1-1) unstable; urgency=low
.
[b794564] New upstream release.
[fc9894b] Pass -D_NO_SSE2 everywhere except on amd64 (Closes: #648803).
[52312b6] Corrected changelog: 0.6.0-1 was actually uploaded to unstable.
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e7e57d76613dbd6611ea14e4702463d48f6f5e7c 4469 bwa_0.6.1-1.debian.tar.gz
75c18eb0efa2b92d00c2b320086727336a737826 152934 bwa_0.6.1-1_amd64.deb
Checksums-Sha256:
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bwa_0.6.1-1.dsc
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bwa_0.6.1-1_amd64.deb
Files:
6fec27dff20b15151078025eb5b707f1 1927 science optional bwa_0.6.1-1.dsc
d9bfc7ffaa3268ca12faa8a664a4f575 129994 science optional bwa_0.6.1.orig.tar.bz2
fcfb7764a26ef404020a1b60c57f167f 4469 science optional
bwa_0.6.1-1.debian.tar.gz
ccfc8470a8d468b1870830d8898d9c8d 152934 science optional bwa_0.6.1-1_amd64.deb
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