Summary

Bugs of task bio-ngs

Total bugs: 13

Open bugs: 8

Fixed bugs: 5

Links to other tasks

Tasks overview

Biology 262 (2722)

Biology development 126 (1245)

Next generation sequencing 8 (150)

Phylogeny 9 (72)

Cloud 52 (717)

Content management 0 (0)

Covid-19 154 (1669)

Medical data 1 (1)

Dental 1 (3)

Epidemiology 13 (224)

Hospital information systems 1 (9)

Imaging 208 (1105)

Imaging development 82 (821)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 29 (273)

Practice 6 (33)

Psychology 6 (46)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 3 (7)

Tools 38 (243)

Typesetting 66 (529)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	4	0
important	1	0
normal	1	1
minor	1	0
wishlist	0	0

Summary bugs page of task Next generation sequencing

Immediately looking into bugs of the dependencies of this task is advised (150)^*

Open bugs in dependent packages

4 serious, 1 important, 1 normal, 1 minor

bcftools (1) Homepage: https://samtools.github.io/bcftools/ Vcs Debian Med Packaging Team
870060	bcftools FTBFS on big endian: 107 tests failed	fixed-upstream, ftbfs, upstream
blasr (1) Homepage: https://github.com/PacificBiosciences/blasr Vcs Debian Med Packaging Team
1067374	blasr: FTBFS: ./obj-x86_64-linux-gnu/../extrautils/StoreQualityByContextFromCmpH5.cpp:40: multiple definition of `main'; toAfg.p/utils_ToAfg.cpp.o:./obj-x86_64-linux-gnu/../utils/ToAfg.cpp:30: first defined here	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	ftbfs, sid, trixie
libvcflib (2) Homepage: https://github.com/vcflib/vcflib Vcs Debian Med Packaging Team
1073098	libvcflib: replace to-be-removed markdown build-dependency	pending
1074044	libvcflib: Improve support for loongarch64	patch, pending
maq (1) Homepage: http://maq.sourceforge.net/ Vcs Debian Med Packaging Team
1075253	maq: ftbfs with GCC-14	ftbfs, sid, trixie
velvet (1) Homepage: https://github.com/dzerbino/velvet Vcs Debian Med Packaging Team
1075617	velvet: ftbfs with GCC-14	ftbfs, sid, trixie

Open bugs in suggested packages

1 normal

python-anndata (1) Homepage: https://github.com/theislab/anndata Vcs Debian Med Packaging Team
1075928	python-anndata: tests fail with scipy 1.13

Done bugs

daligner (1) Homepage: https://dazzlerblog.wordpress.com Vcs Debian Med Packaging Team
1074900	daligner: ftbfs with GCC-14	sid, trixie
r-bioc-hilbertvis (1) Homepage: https://bioconductor.org/packages/HilbertVis Vcs Debian R Packages Maintainers
1071343	r-bioc-hilbertvis: FTBFS: make_wiggle_vector.c:16:17: error: format not a string literal and no format arguments	ftbfs
sra-sdk (2) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1040391	sra-toolkit: broken symlink: /usr/lib/debian-med/bin/kget -> ../../../bin/vdb-get
1065961	sra-sdk: Please drop dependencies on python3-distutils	ftbfs
ssake (1) Homepage: https://www.bcgsc.ca/platform/bioinfo/software/ssake Vcs Debian Med Packaging Team
1073105	ssake: replace to-be-removed markdown build-dependency	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