Summary

Bugs of task bio-ngs

Total bugs: 7

Open bugs: 2

Fixed bugs: 5

Links to other tasks

Tasks overview

Biology 239 (2466)

Biology development 130 (1353)

Next generation sequencing 2 (45)

Phylogeny 11 (150)

Cloud 38 (455)

Content management 0 (0)

Covid-19 201 (2271)

Medical data 0 (0)

Dental 3 (21)

Epidemiology 22 (292)

Hospital information systems 0 (0)

Imaging 208 (1002)

Imaging development 94 (892)

Laboratory 1 (30)

Oncology 0 (0)

Pharmacology 1 (30)

Physics 32 (345)

Practice 8 (54)

Psychology 16 (150)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 8 (12)

Tools 36 (233)

Typesetting 75 (647)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	1	0
important	1	0
normal	0	0
minor	0	0
wishlist	0	0

Summary bugs page of task Next generation sequencing

Consider looking into bugs of this task^*

Open bugs in dependent packages

1 serious, 1 important

htslib (1) Homepage: https://github.com/samtools/htslib Vcs Debian Med Packaging Team
1131493	htslib: CVE-2026-31962 CVE-2026-31963 CVE-2026-31964 CVE-2026-31965 CVE-2026-31966 CVE-2026-31967 CVE-2026-31968 CVE-2026-31969 CVE-2026-31970 CVE-2026-31971	security, upstream
picard-tools (1) Homepage: https://broadinstitute.github.io/picard/ Vcs Debian Med Packaging Team
1131584	picard-tools: FTBFS: Test: Test method testCleanSam[1](simple_overhang.sam, 99M1S)(picard.sam.CleanSamTest) produced standard out/err: Ignoring SAM validation error: ERROR::CIGAR_MAPS_OFF_REFERENCE:Read name simple_overhang, Read CIGAR M operator maps off end of reference	forky, ftbfs, sid

Open bugs in suggested packages

Done bugs

bedtools (1) Homepage: https://github.com/arq5x/bedtools2 Vcs Debian Med Packaging Team
1105730	bedtools: FTBFS with make --shuffle=random: src/utils/version/version.cpp:2:10: fatal error: version_git.h: No such file or directory	forky, ftbfs, sid, trixie
last-align (1) Homepage: https://gitlab.com/mcfrith/last Vcs Debian Med Packaging Team
1048396	last-align: Fails to build source after successful build	forky, ftbfs, sid, trixie
sra-sdk (2) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1126172	sra-sdk ftbfs with abseil 20260107	forky, ftbfs, sid
1128753	sra-sdk: FTBFS with glibc 2.43 due to ISO C23 const return types	ftbfs, upstream
velvet (1) Homepage: https://github.com/dzerbino/velvet Vcs Debian Med Packaging Team
1105569	velvet: FTBFS with make --shuffle=reverse: Fatal error: can't create obj/autoOpen.o: No such file or directory	forky, ftbfs, sid, trixie

^*To estimate the overall status of the packages in the dependencies of a metapackage a weighted severity is calculated. Done bugs are ignored and bugs in dependent and recommended packages are weighted by factor three compared to suggested packages. Release critical bugs have a much larger weight than important, while the contribution of normal bugs is even smaller and minor bugs have a very small weight. Wishlist bugs are ignored in this calculation. The resulting sum is compared to some boundaries to find a verbal form. The actual numbers need some adjustment to make real sense - this evaluation method is in testing phase.
The severities of bugs are weighted as follows:

critical	10
grave	10
serious	10
important	5
normal	3
minor	1
wishlist	0