[Debian-med-packaging] Bug#1066363: seqprep: FTBFS: SeqPrep.c:166:15: error: implicit declaration of function ‘getopt’ [-Werror=implicit-function-declaration]

[Lucas Nussbaum]

Source: seqprep
Version: 1.3.2-8
Severity: serious
Justification: FTBFS
Tags: trixie sid ftbfs
User: lucas at 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):
> cc  -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu90 -c -Wall -O0 -g -std=c99 stdaln.c -o stdaln.o
> SeqPrep.c: In function ‘main’:
> SeqPrep.c:166:15: error: implicit declaration of function ‘getopt’ [-Werror=implicit-function-declaration]
>   166 |   while( (ich=getopt( argc, argv, "f:r:1:2:3:4:q:A:s:y:B:O:E:x:M:N:L:o:m:b:w:W:p:P:X:Q:t:e:Z:n:S6ghz" )) != -1 ) {
>       |               ^~~~~~
> cc1: some warnings being treated as errors
> make[2]: *** [Makefile:18: SeqPrep.o] Error 1


The full build log is available from:
http://qa-logs.debian.net/2024/03/13/seqprep_1.3.2-8_unstable.log

All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20240313;users=lucas@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20240313&fusertaguser=lucas@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.