Your message dated Wed, 13 Mar 2024 17:50:44 +0000
with message-id <e1rkskw-007wkk...@fasolo.debian.org>
and subject line Bug#1066716: fixed in libtfbs-perl 0.7.1+ds-3
has caused the Debian Bug report #1066716,
regarding libtfbs-perl: FTBFS: ./lib/pwm_searchPFF.c:55:7: error: implicit
declaration of function ‘announce’ [-Werror=implicit-function-declaration]
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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immediately.)
--
1066716: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1066716
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: libtfbs-perl
Version: 0.7.1+ds-2
Severity: serious
Justification: FTBFS
Tags: trixie sid ftbfs
User: lu...@debian.org
Usertags: ftbfs-20240313 ftbfs-trixie ftbfs-impfuncdef
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
This is most likely caused by a change in dpkg 1.22.6, that enabled
-Werror=implicit-function-declaration. For more information, see
https://wiki.debian.org/qa.debian.org/FTBFS#A2024-03-13_-Werror.3Dimplicit-function-declaration
Relevant part (hopefully):
> x86_64-linux-gnu-gcc -c -I. -I./lib -D_REENTRANT -D_GNU_SOURCE -DDEBIAN
> -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE
> -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
> -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection
> -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.2\" -DXS_VERSION=\"0.2\"
> -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.38/CORE" pwmsearch.c
> In file included from pwmsearch.xs:4:
> ./lib/pwm_searchPFF.c: In function ‘do_search’:
> ./lib/pwm_searchPFF.c:55:7: error: implicit declaration of function
> ‘announce’ [-Werror=implicit-function-declaration]
> 55 | announce("+++\nEntering main.\n+++\n");
> | ^~~~~~~~
> ./lib/pwm_searchPFF.c:74:9: error: implicit declaration of function
> ‘get_matrix’ [-Werror=implicit-function-declaration]
> 74 | if ( get_matrix(&args,pwm) )
> | ^~~~~~~~~~
> ./lib/pwm_searchPFF.c:90:14: error: implicit declaration of function
> ‘loop_on_seqs’ [-Werror=implicit-function-declaration]
> 90 | else if ( loop_on_seqs(&args,pwm,fp,outfp) )
> | ^~~~~~~~~~~~
> ./lib/pwm_searchPFF.c: At top level:
> ./lib/pwm_searchPFF.c:159:1: warning: return type defaults to ‘int’
> [-Wimplicit-int]
> 159 | best_pull(pargs,pbase,pstrand,pscore)
> | ^~~~~~~~~
> ./lib/pwm_searchPFF.c: In function ‘do_seq’:
> ./lib/pwm_searchPFF.c:229:18: error: implicit declaration of function
> ‘save_hit’; did you mean ‘save_hptr’? [-Werror=implicit-function-declaration]
> 229 | if ( save_hit(base,0,forward_score,hits,&nhit) )
> | ^~~~~~~~
> | save_hptr
> ./lib/pwm_searchPFF.c:239:20: error: implicit declaration of function
> ‘output’ [-Werror=implicit-function-declaration]
> 239 | else if ( output(pargs,seqid,base,seq,0,forward_score,outfp)
> )
> | ^~~~~~
> ./lib/pwm_searchPFF.c: At top level:
> ./lib/pwm_searchPFF.c:526:1: warning: return type defaults to ‘int’
> [-Wimplicit-int]
> 526 | get_sequence(fp,seq_id,sequence)
> | ^~~~~~~~~~~~
> cc1: some warnings being treated as errors
> make[2]: *** [Makefile:324: pwmsearch.o] Error 1
The full build log is available from:
http://qa-logs.debian.net/2024/03/13/libtfbs-perl_0.7.1+ds-2_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20240313;users=lu...@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20240313&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results
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!
If you reassign this bug to another package, please mark it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.
--- End Message ---
--- Begin Message ---
Source: libtfbs-perl
Source-Version: 0.7.1+ds-3
Done: Bas Couwenberg <sebas...@debian.org>
We believe that the bug you reported is fixed in the latest version of
libtfbs-perl, 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 1066...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Bas Couwenberg <sebas...@debian.org> (supplier of updated libtfbs-perl 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: SHA512
Format: 1.8
Date: Wed, 13 Mar 2024 18:33:49 +0100
Source: libtfbs-perl
Architecture: source
Version: 0.7.1+ds-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Bas Couwenberg <sebas...@debian.org>
Closes: 1066716
Changes:
libtfbs-perl (0.7.1+ds-3) unstable; urgency=medium
.
* Team upload.
* Bump debhelper compat to 13.
* Use dh-sequence-pdl for dh_pdl.
* Update lintian overrides.
* Bump Standards-Version to 4.6.2, no changes.
* Add Rules-Requires-Root to control file.
* Add patch to fix FTBFS with GCC 14.
(closes: #1066716)
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libtfbs-perl_0.7.1+ds-3.debian.tar.xz
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libtfbs-perl_0.7.1+ds-3_amd64.buildinfo
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Files:
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