[Debian-med-packaging] Bug#976588: rapmap: FTBFS: cc: error: unrecognized command-line option ‘-msse4.1’

[Lucas Nussbaum]

Source: rapmap
Version: 0.15.0+dfsg-1
Severity: serious
Justification: FTBFS on arm64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20201205 ftbfs-bullseye

Hi,

During a rebuild of all packages in sid, your package failed to build
on arm64 (I don't know if it also fails on amd64).

Relevant part (hopefully):
> cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_KALLOC -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -msse2 -mno-sse4.1 -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_extd2_sse.c
> cc: error: unrecognized command-line option ‘-msse4.1’
> make[4]: *** [src/CMakeFiles/ksw2pp_sse4.dir/build.make:85: src/CMakeFiles/ksw2pp_sse4.dir/ksw2pp/ksw2_extd2_sse.c.o] Error 1

The full build log is available from:
   http://qa-logs.debian.net/2020/12/05/rapmap_0.15.0+dfsg-1_unstable.log

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 marking 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 me
so that we can identify if something relevant changed in the meantime.

About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.