Summary

Bugs of task bio-dev

Total bugs: 180

Open bugs: 126

Fixed bugs: 54

Links to other tasks

Tasks overview

Biology 258 (2699)

Biology development 126 (1245)

Next generation sequencing 8 (150)

Phylogeny 9 (72)

Cloud 50 (714)

Content management 0 (0)

Covid-19 150 (1631)

Medical data 1 (1)

Dental 1 (3)

Epidemiology 13 (224)

Hospital information systems 1 (9)

Imaging 207 (1075)

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	1	0
serious	16	16
important	18	3
normal	21	3
minor	29	5
wishlist	12	2

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (1245)^*

Open bugs in dependent packages

1 grave, 16 serious, 18 important, 21 normal, 29 minor, 12 wishlist

bamtools (1) Homepage: https://github.com/pezmaster31/bamtools/wiki Vcs Debian Med Packaging Team
865130	reapr FTBFS on big endian: Error sampling from files '00.Sample/fragCov.gz', '00.assembly.fa.gc.gz'	upstream, ftbfs
fermi-lite (2) Homepage: https://github.com/lh3/fermi-lite Vcs Debian Med Packaging Team
1044647	fermi-lite: Fails to build source after successful build	ftbfs, sid, trixie
1049564	fermi-lite: Fails to build binary packages again after successful build	ftbfs, sid, trixie
gatb-core (2) Homepage: https://github.com/GATB/gatb-core Vcs Debian Med Packaging Team
929564	gatb-core-testdata: broken symlink: /usr/share/doc/gatb-core/test/gatb-core-cppunit -> ../../../../lib/gatb-core/gatb-core-cppunit
983926	gatb-core: ftbfs with -march=x86-64-v2
hdf5 (24) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
638753	libhdf5-serial-1.8.7: threadsafe memory leaks	moreinfo
715959	[Mayhem] Bug report on hdf5-tools: gif2h5 crashes with exit status 139
716008	[Mayhem] Bug report on hdf5-tools: h5copy crashes with exit status 139
716010	[Mayhem] Bug report on hdf5-tools: h5diff crashes with exit status 139
716011	[Mayhem] Bug report on hdf5-tools: h5dump crashes with exit status 139
716012	[Mayhem] Bug report on hdf5-tools: h5import crashes with exit status 139
740613	libhdf5-7: Please include support for compression with libaec
748587	Duplicate and conflicting definitions of variable FILENAME	upstream
839784	libhdf5-dev: pkg-config file references ONLY the C library
915807	hdf5: CVE-2017-17507	security, upstream
958174	hdf5: please add the hdf5plugins
968559	libhdf5-openmpi-dev: hdf5-mpi.pc alternative sometimes goes missing	moreinfo
1023446	libhdf5-openmpi-dev: h5pcc configured as static build
1023820	hdf5: Dependencies not tight enough
1031726	hdf5: CVE-2022-26061 CVE-2022-25972 CVE-2022-25942	upstream, security
1034807	hdf5: CVE-2018-11205	upstream, security
1034838	hdf5: CVE-2019-8396 CVE-2019-8398	security
1040862	hdf5: S3 VFD pulls in networking dependencies (libcurl), please package it as a VFD plugin
1052250	pkg-config file incorrect for static linking
1063856	hdf5: new upstream release
1067758	Please provide a nojava build profile
1067789	hdf5: diff for NMU version 1.10.10+repack-3.2	patch, pending
1067950	hdf5: diff for NMU version 1.10.10+repack-3.3	patch, pending
1075063	hdf5: ftbfs with GCC-14	trixie, ftbfs, sid
libace-perl (1) Homepage: https://metacpan.org/release/AcePerl Vcs Debian Med Packaging Team
1075138	libace-perl: ftbfs with GCC-14	sid, ftbfs, trixie
libai-fann-perl (1) Homepage: https://metacpan.org/release/AI-FANN Vcs Debian Perl Group
948463	libai-fann-perl: Integer overflow leading to heap buffer overflow
libbio-scf-perl (1) Homepage: https://metacpan.org/release/Bio-SCF Vcs Debian Perl Group
599961	libbio-scf-perl: FTBFS: Neither BIG nor LITTLE endian defined
libbpp-core (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015473	libbpp-core: ftbfs with LTO (link time optimization) enabled	sid, trixie
libbpp-phyl (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015475	libbpp-phyl: ftbfs with LTO (link time optimization) enabled	sid, trixie
libbpp-popgen (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015474	libbpp-popgen: ftbfs with LTO (link time optimization) enabled	sid, trixie
libbpp-raa (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015477	libbpp-raa: ftbfs with LTO (link time optimization) enabled	sid, trixie
libbpp-seq (2) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015478	libbpp-seq: ftbfs with LTO (link time optimization) enabled	trixie, sid
1075153	libbpp-seq: ftbfs with GCC-14	ftbfs, sid, trixie
libbpp-seq-omics (2) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015479	libbpp-seq-omics: ftbfs with LTO (link time optimization) enabled	sid, trixie
1075154	libbpp-seq-omics: ftbfs with GCC-14	trixie, sid, ftbfs
libchado-perl (3) Homepage: http://gmod.org/wiki/Chado Vcs Debian Med Packaging Team
1039562	libchado-perl: fails to access database during installation	wontfix
1047661	libchado-perl: Fails to build source after successful build	ftbfs, sid, trixie
1049705	libchado-perl: Fails to build binary packages again after successful build	ftbfs, sid, trixie
libcifpp (3) Homepage: https://github.com/PDB-REDO/libcifpp Vcs Debian Med Packaging Team
1048817	libcifpp: Fails to build source after successful build	ftbfs, sid, trixie
1063191	libcifpp-data: Incorrect URL in update-libcifpp-data script	patch
1068860	[INTL:sv] Swedish strings for libcifpp debconf	l10n, patch
libncl (2) Homepage: https://github.com/mtholder/ncl Vcs Debian Med Packaging Team
1015505	libncl: ftbfs with LTO (link time optimization) enabled	sid, trixie
1075191	libncl: ftbfs with GCC-14	ftbfs, sid, trixie
libpdb-redo (1) Homepage: https://github.com/PDB-REDO/libpdb-redo Vcs Debian Med Packaging Team
1046388	libpdb-redo: Fails to build source after successful build	ftbfs, sid, trixie
libpwiz (1) Homepage: http://proteowizard.sourceforge.net/downloads.shtml Vcs The Debichem Group
1075199	libpwiz: ftbfs with GCC-14	trixie, sid, ftbfs
librcsb-core-wrapper (1) Homepage: https://sw-tools.rcsb.org/apps/CORE-WRAPPER/index.html Vcs Debian Med Packaging Team
1046372	librcsb-core-wrapper: Fails to build source after successful build	ftbfs, sid, trixie
librostlab (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1047025	librostlab: Fails to build source after successful build	ftbfs, sid, trixie
libslow5lib (3) Homepage: https://github.com/hasindu2008/slow5lib Vcs Debian Med Packaging Team
1048497	libslow5lib: Fails to build source after successful build	ftbfs, sid, trixie
1049769	libslow5lib: Fails to build binary packages again after successful build	ftbfs, sid, trixie
1069771	libslow5lib FTBFS on big endian architectures	ftbfs
libstatgen (1) Homepage: https://genome.sph.umich.edu/wiki/C++_Library:_libStatGen Vcs Debian Med Packaging Team
1075208	libstatgen: ftbfs with GCC-14	trixie, ftbfs, sid
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	pending, patch
mcl (1) Homepage: https://micans.org/mcl/ Vcs Debian Med Packaging Team
1046152	mcl: Fails to build source after successful build	ftbfs, sid, trixie
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
225651	ncbi-tools-x11: want Cn3D++
ncbi-vdb (1) Homepage: https://github.com/ncbi/ncbi-vdb Vcs Debian Med Packaging Team
1075868	ncbi-vdb: FTBFS with MbedTLS 3.6	ftbfs
nim-hts (2) Homepage: https://github.com/brentp/hts-nim Vcs Debian Med Packaging Team
1046095	nim-hts: Fails to build source after successful build	ftbfs, sid, trixie
1049588	nim-hts: Fails to build binary packages again after successful build	ftbfs, sid, trixie
openms (1) Homepage: http://www.openms.de Vcs The Debichem Group
1068052	openms: FTBFS on armel,armhf (error: âQOpenGLFunctions_2_0â does not name a type)	ftbfs
parasail (1) Homepage: https://github.com/jeffdaily/parasail Vcs Debian Med Packaging Team
1075361	parasail: ftbfs with GCC-14	sid, ftbfs, trixie
python-anndata (1) Homepage: https://github.com/theislab/anndata Vcs Debian Med Packaging Team
1075928	python-anndata: tests fail with scipy 1.13
python-cobra (1) Homepage: https://opencobra.github.io/cobrapy/ Vcs Debian Med Packaging Team
1067989	python3-cobra: Please replace python3-appdirs dependency with platformdirs	sid, trixie
python-cogent (1) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1058479	python-cogent: please (temporarily) drop python3-numba dependencies	wontfix
python-loompy (1) Homepage: https://github.com/linnarsson-lab/loompy Vcs Debian Med Packaging Team
1058482	python-loompy: please (temporarily) drop python3-numba dependencies
python-pairix (1) Homepage: https://github.com/4dn-dcic/pairix Vcs Debian Med Packaging Team
1075419	python-pairix: ftbfs with GCC-14	sid, ftbfs, trixie
python-pyspoa (1) Homepage: https://github.com/nanoporetech/pyspoa Vcs Debian Med Packaging Team
1045607	python-pyspoa: Fails to build source after successful build	ftbfs, sid, trixie
python-streamz (1) Homepage: https://github.com/python-streamz/streamz/ Vcs Debian Python Team
1046218	python-streamz: Fails to build source after successful build	ftbfs, sid, trixie
pytorch (7) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
983517	pytorch: Build documentation
1056388	FTBFS with fmtlib 10	fixed-upstream, ftbfs
1057644	pytorch: build for all supported Python versions	wontfix
1070379	pytorch: CVE-2024-31580 CVE-2024-31583 CVE-2024-31584	security, upstream
1071655	pytorch: FTBFS on ppc64el	ftbfs
1072969	pytorch: CVE-2024-5480	security, upstream
1076183	pytorch: please rebuild against flatbuffers
r-cran-metamix (2) Homepage: https://cran.r-project.org/package=metaMix Vcs Debian R Packages Maintainers
1069509	r-cran-metamix: FTBFS on armhf: tests fail	trixie, moreinfo, ftbfs, sid
1076615	r-cran-metamix: autopkgtest regression with rmpi 0.7-2-2 (armel,armhf,i386)
rdkit (7) Homepage: http://www.rdkit.org Vcs Debichem Team
927955	python-rdkit: missing module pyAvalonTools
964773	rdkit: Please build rdkit with inchi support	wontfix
983040	rdkit: doesn't ship with inchi support enabled	wontfix
983077	rdkit doesn't ship with inchi support enabled	wontfix
1069873	rdkit: FTBFS convert: Unable to read font (/usr/share/fonts/type1/gsfonts/n019003l.pfb).	ftbfs, sid
1075439	rdkit: ftbfs with GCC-14	sid, ftbfs, trixie
1077055	postgresql-16-rdkit: inchi support not included in rdkit build
reprof (2) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1045897	reprof: Fails to build source after successful build	ftbfs, sid, trixie
1049597	reprof: Fails to build binary packages again after successful build	ftbfs, sid, trixie
ruby-crb-blast (1) Homepage: https://github.com/cboursnell/crb-blast Vcs Debian Ruby Team
1045625	ruby-crb-blast: Fails to build source after successful build	ftbfs, sid, trixie
seqan2 (2) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
917851	seqan2 2.4.0+dfsg-9: FTBFS, alignment problem	ftbfs
1047218	seqan2: Fails to build source after successful build	ftbfs, sid, trixie
seqan3 (1) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
1048951	seqan3: Fails to build source after successful build	ftbfs, sid, trixie
snakemake (1) Homepage: https://snakemake.readthedocs.io/ Vcs Debian Med Packaging Team
1076925	snakemake: FTBFS: failing tests	ftbfs
toil (1) Homepage: https://github.com/BD2KGenomics/toil Vcs Debian Med Packaging Team
1073358	toil: FTBFS: ModuleNotFoundError: No module named 'boto'	ftbfs, sid, trixie
unifrac (1) Homepage: https://github.com/biocore/unifrac Vcs Debian Med Packaging Team
1075607	unifrac: ftbfs with GCC-14	trixie, confirmed, sid, ftbfs

Open bugs in suggested packages

16 serious, 3 important, 3 normal, 5 minor, 2 wishlist

bbhash (1) Homepage: https://github.com/rizkg/BBHash Vcs Debian Med Packaging Team
1049876	bbhash: FTBFS on 32 bit architectures	ftbfs, sid, trixie
bcbio (2) Homepage: https://github.com/bcbio/bcbio-nextgen Vcs Debian Med Packaging Team
928076	bcbio: Workflows not ready for non-developers to depend on.
1018312	bcbio: build-depends on python3-nose or uses it for autopkgtest
btllib (3) Homepage: https://github.com/bcgsc/btllib Vcs Debian Med Packaging Team
1022772	btllib: fails to build on 32-bit archs	wontfix
1032358	btllib: Depends on libsdsl-dev, breaking installability when not needed	pending, patch
1058455	btllib: add build support for loongarch64	patch
concurrentqueue (1) Homepage: https://github.com/cameron314/concurrentqueue Vcs Debian Med Packaging Team
1043870	concurrentqueue: Fails to build source after successful build	ftbfs, sid, trixie
freecontact (2) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1049797	freecontact: Fails to build binary packages again after successful build	ftbfs, sid, trixie
1069552	freecontact: FTBFS on armel: make[1]: *** [Makefile:469: all-recursive] Error 1	ftbfs, sid, trixie
intake (3) Homepage: https://github.com/intake/intake Vcs Debian Med Packaging Team
1063953	intake: autopkgtest regression with pytest 8
1064752	intake: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.12 3.11" returned exit code 13	ftbfs, sid, trixie
1067969	python3-intake: Please replace python3-appdirs dependency with platformdirs	sid, trixie
libmaus2 (2) Homepage: https://gitlab.com/german.tischler/libmaus2 Vcs Debian Med Packaging Team
934619	libmaus2 FTBFS (mostly 32bit): error: no matching function for call	ftbfs, upstream, help, fixed-upstream
1069691	libmaus2: FTBFS on arm64: what(): AutoArray<unsigned long,alloc_type_memalign_cacheline> failed to allocate 1398102 elements (11184816 bytes)	upstream, confirmed, ftbfs
libpsortb (1) Homepage: https://www.psort.org/ Vcs Debian Med Packaging Team
1075198	libpsortb: ftbfs with GCC-14	sid, ftbfs, trixie
python-ncls (1) Homepage: https://github.com/biocore-ntnu/ncls Vcs Debian Python Team
1046648	python-ncls: Fails to build source after successful build	ftbfs, sid, trixie
python-seqcluster (2) Homepage: https://github.com/lpantano/seqcluster Vcs Debian Med Packaging Team
1035277	python-seqcluster: please add autopkgtests (to add coverage for python3-numpy)
1076912	python-seqcluster: FTBFS: AttributeError: module 'scipy.stats' has no attribute 'binom_test'	ftbfs
q2-alignment (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076318	q2-alignment hard-codes python 3.11 without depending on it	sid, trixie
q2-demux (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076315	q2-demux hard-codes python 3.11 without depending on it	sid, trixie
q2-feature-classifier (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1071882	q2-feature-classifier: FTBFS: unsatisfiable build-dependencies	ftbfs
q2-phylogeny (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076317	q2-phylogeny hard-codes python 3.11 without depending on it	sid, trixie
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076914	q2-quality-control: FTBFS: rm: cannot remove '/<<PKGBUILDDIR>>/debian//usr/lib/python3/dist-packages/run_decontam.R': No such file or directory	ftbfs
q2-types (2) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1065333	q2-types: test data heavily outweighs actual code
1076316	q2-types hard-codes python 3.11 without depending on it	sid, trixie
q2cli (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076080	q2cli: FTBFS in sid (python3.12)
qiime (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1076314	qiime hard-codes python 3.11 without depending on it	sid, trixie
savvy (1) Homepage: https://github.com/statgen/savvy Vcs Debian Med Packaging Team
1075487	savvy: ftbfs with GCC-14	ftbfs, sid, trixie
sumalibs (1) Homepage: https://git.metabarcoding.org/obitools/sumalibs Vcs Debian Med Packaging Team
1075544	sumalibs: ftbfs with GCC-14	ftbfs, sid, trixie

Done bugs

bamtools (1) Homepage: https://github.com/pezmaster31/bamtools/wiki Vcs Debian Med Packaging Team
1075990	bamtools corrupts output data on bigendian architectures	patch, upstream
consensuscore (1) Homepage: https://github.com/PacificBiosciences/ConsensusCore Vcs Debian Med Packaging Team
1067499	libconsensuscore-dev: ships /usr/include/meson.build
gffread (3) Homepage: https://ccb.jhu.edu/software/stringtie/gff.shtml Vcs Debian Med Packaging Team
1033703	gffread: autopkgtest regression: test dependency not in testing	bookworm-ignore
1073921	gffread: Revert the 0.12.7-4 tests workaround
1076731	src:gffread: fails to migrate to testing for too long: autopkgtest regression on s390x	sid, trixie
hdf5 (1) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
1070861	hdf5: CVE-2024-33877 CVE-2024-33876 CVE-2024-33875 CVE-2024-33874 CVE-2024-33873 CVE-2024-32624 CVE-2024-32623 CVE-2024-32622 CVE-2024-32621 CVE-2024-32620 CVE-2024-32619 CVE-2024-32618 CVE-2024-32617 CVE-2024-32616 CVE-2024-32615 CVE-2024-32614 CVE-2024-32613 CVE-2024-32612 CVE-2024-32611 CVE-2024-32610 CVE-2024-32609 CVE-2024-32608 CVE-2024-32607 CVE-2024-32606 CVE-2024-32605 CVE-2024-29166 CVE-2024-29165 CVE-2024-29164 CVE-2024-29163 CVE-2024-29162 CVE-2024-29161 CVE-2024-29160 CVE-2024-29159 CVE-2024-29158 CVE-2024-29157	security, upstream
libbpp-core (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075147	libbpp-core: ftbfs with GCC-14	sid, trixie
libbpp-phyl (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075148	libbpp-phyl: ftbfs with GCC-14	sid, trixie
libbpp-phyl-omics (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075149	libbpp-phyl-omics: ftbfs with GCC-14	sid, trixie
libbpp-popgen (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075151	libbpp-popgen: ftbfs with GCC-14	sid, trixie
libbpp-qt (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075150	libbpp-qt: ftbfs with GCC-14	sid, trixie
libbpp-raa (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1075152	libbpp-raa: ftbfs with GCC-14	sid, trixie
libedlib (2) Homepage: https://github.com/Martinsos/edlib Vcs Debian Med Packaging Team
1015484	libedlib: ftbfs with LTO (link time optimization) enabled	trixie, sid
1075164	libedlib: ftbfs with GCC-14	sid, trixie
libmems (1) Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Vcs Debian Med Packaging Team
1075186	libmems: ftbfs with GCC-14	sid, trixie
libmuscle (2) Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/muscle/trunk/ Vcs Debian Med Packaging Team
1015504	libmuscle: ftbfs with LTO (link time optimization) enabled	sid, trixie
1075190	libmuscle: ftbfs with GCC-14	sid, trixie
libsbml (1) Homepage: http://www.sbml.org/ Vcs Debian Med Packaging Team
1073321	libsbml: FTBFS: LibXMLParser.cpp:427:46: error: invalid conversion from âconst xmlErrorâ {aka âconst _xmlErrorâ} to âxmlErrorPtrâ {aka â_xmlError*â} [-fpermissive]	ftbfs, trixie, sid
libslow5lib (1) Homepage: https://github.com/hasindu2008/slow5lib Vcs Debian Med Packaging Team
1075205	libslow5lib: ftbfs with GCC-14	ftbfs, sid, trixie
libssw (2) Homepage: https://github.com/mengyao/Complete-Striped-Smith-Waterman-Library Vcs Debian Med Packaging Team
1015525	libssw: ftbfs with LTO (link time optimization) enabled	experimental, sid, trixie
1075207	libssw: ftbfs with GCC-14	sid, trixie
libtfbs-perl (1) Homepage: http://tfbs.genereg.net Vcs Debian Med Packaging Team
1075213	libtfbs-perl: ftbfs with GCC-14	sid, trixie
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
1075307	ncbi-tools6: ftbfs with GCC-14	trixie, sid, ftbfs
pybigwig (1) Homepage: https://github.com/dpryan79/pyBigWig Vcs Debian Med Packaging Team
1075407	pybigwig: ftbfs with GCC-14	sid, trixie
python-cogent (2) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1030885	python-cogent: FTBFS (some tests require more than one CPU)	ftbfs, patch
1074562	python-cogent: binary-any FTBFS	ftbfs
python-cooler (1) Homepage: https://github.com/mirnylab/cooler Vcs Debian Med Packaging Team
1069359	python-cooler: FTBFS due to TypeError in dask.dataframe import	sid, ftbfs, confirmed, trixie
python-py2bit (1) Homepage: https://github.com/deeptools/py2bit/ Vcs Debian Med Packaging Team
1075421	python-py2bit: ftbfs with GCC-14	trixie, sid
python-pyflow (1) Homepage: https://illumina.github.io/pyflow/ Vcs Debian Med Packaging Team
1054591	python3-pyflow: ${VERSION} not expanded in package metadata, causing PEP-440 validation failures
python-skbio (1) Homepage: https://github.com/biocore/scikit-bio Vcs Debian Med Packaging Team
1074745	python-skbio: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.11 3.12" returned exit code 13	sid, trixie, ftbfs
pytorch (2) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
994423	pytorch: Baseline violation on armhf	trixie, ftbfs, experimental, bullseye, sid, bookworm
1060097	pytorch: FBFS: /<<PKGBUILDDIR>>/aten/src/ATen/native/quantized/cpu/qlinear_prepack.cpp:249:103: error: cannot convert âdnnl::memory::data_typeâ to âconst ideep::dims&â {aka âconst std::vector<long int>&â}	ftbfs
q2-emperor (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1065945	q2-emperor: Please drop dependencies on python3-distutils
q2-feature-table (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1070988	src:q2-feature-table: fails to migrate to testing for too long: autopkgtest regression	sid, trixie
q2-sample-classifier (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1065946	q2-sample-classifier: Please drop dependencies on python3-distutils
qiime (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1068006	qiime: Please replace python3-appdirs dependency with platformdirs	sid, trixie
r-bioc-affxparser (1) Homepage: https://bioconductor.org/packages/affxparser/ Vcs Debian R Packages Maintainers
1071340	r-bioc-affxparser: FTBFS: R_affx_cdf_parser.cpp:1099:17: error: format not a string literal and no format arguments	ftbfs
r-bioc-annotationhub (1) Homepage: https://bioconductor.org/packages/AnnotationHub/ Vcs Debian R Packages Maintainers
1034852	r-bioc-annotationhub: autopkgtest regression: download failed	bookworm-ignore
r-bioc-biomart (1) Homepage: https://bioconductor.org/packages/biomaRt/ Vcs Debian R Packages Maintainers
1039501	r-bioc-biomart: autopkgtest regression: Failure ('test_ensembl_ssl_settings.R:71')
r-bioc-genefilter (1) Homepage: https://bioconductor.org/packages/genefilter/ Vcs Debian R Packages Maintainers
1071341	r-bioc-genefilter: FTBFS: nd.c:75:21: error: format not a string literal and no format arguments	ftbfs
r-bioc-iranges (1) Homepage: https://bioconductor.org/packages/IRanges/ Vcs Debian R Packages Maintainers
1070841	r-bioc-iranges: autopkgtest regression with r-base 4.4.0
r-bioc-oligo (1) Homepage: https://bioconductor.org/packages/oligo/ Vcs Debian R Packages Maintainers
1071344	r-bioc-oligo: FTBFS: basecontent.c:54:15: error: format not a string literal and no format arguments	ftbfs
r-bioc-rsamtools (1) Homepage: https://bioconductor.org/packages/Rsamtools/ Vcs Debian R Packages Maintainers
1071346	r-bioc-rsamtools: FTBFS: samtools_patch.c:37:13: error: format not a string literal and no format arguments	ftbfs
r-bioc-rtracklayer (1) Homepage: https://bioconductor.org/packages/rtracklayer/ Vcs Debian R Packages Maintainers
1071347	r-bioc-rtracklayer: FTBFS: handlers.c:10:11: error: format not a string literal and no format arguments	ftbfs
r-bioc-s4vectors (2) Homepage: https://bioconductor.org/packages/S4Vectors/ Vcs Debian R Packages Maintainers
1070843	r-bioc-s4vectors: autopkgtest regression with r-base 4.4.0
1071349	r-bioc-s4vectors: FTBFS: Rle_class.c:1136:17: error: format not a string literal and no format arguments	ftbfs
r-bioc-shortread (1) Homepage: https://bioconductor.org/packages/ShortRead/ Vcs Debian R Packages Maintainers
1071350	r-bioc-shortread: FTBFS: readBfaToc.cc:30:14: error: format not a string literal and no format arguments	ftbfs
r-bioc-structuralvariantannotation (1) Homepage: https://bioconductor.org/packages/StructuralVariantAnnotation/ Vcs Debian R Packages Maintainers
1025045	r-bioc-structuralvariantannotation: Test failures in autopkgtest	bookworm-ignore, upstream
r-bioc-variantannotation (1) Homepage: https://bioconductor.org/packages/VariantAnnotation/ Vcs Debian R Packages Maintainers
1071352	r-bioc-variantannotation: FTBFS: vcffile.c:46:5: error: format not a string literal and no format arguments	ftbfs
r-bioc-xvector (1) Homepage: https://bioconductor.org/packages/XVector/ Vcs Debian R Packages Maintainers
1071353	r-bioc-xvector: FTBFS: RDS_random_access.c:136:17: error: format not a string literal and no format arguments	ftbfs
spoa (1) Homepage: https://github.com/rvaser/spoa Vcs Debian Med Packaging Team
1075532	spoa: ftbfs with GCC-14	trixie, sid, 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
unifrac (1) Homepage: https://github.com/biocore/unifrac Vcs Debian Med Packaging Team
1074302	unifrac: autopkgtest failure with python3-skbio 0.6.1-1 from experimental

^*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