[Debian-med-packaging] Bug#997294: skesa: FTBFS: ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_freeDCtx'

[Lucas Nussbaum]

Source: skesa
Version: 2.4.0-2
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.


Relevant part (hopefully):
> c++ -std=c++11 -fdiagnostics-color=never -o kmercounter kmercounter.o glb_align.o -L /<<PKGBUILDDIR>>/NGS/vdb_out/lib64 -lncbi-ngs-c++ -lncbi-vdb -L /<<PKGBUILDDIR>>/NGS/ngs_out/lib64 -lngs-c++ -Wl,-Bstatic  -lboost_program_options -lboost_iostreams -lboost_regex -lboost_timer -lboost_chrono -lboost_system -Wl,-Bdynamic -lrt -ldl -lm  -lpthread -lz
> /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_freeDCtx'
> /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_decompressDCtx'
> /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_createDCtx'
> /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_isError'
> /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `ZSTD_getErrorName'
> collect2: error: ld returned 1 exit status


The full build log is available from:
http://qa-logs.debian.net/2021/10/23/skesa_2.4.0-2_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 mine
so that we can identify if something relevant changed in the meantime.