Summary

Bugs of task bio-dev

Total bugs: 187

Open bugs: 173

Fixed bugs: 14

Links to other tasks

Tasks overview

Biology 376 (4285)

Biology development 173 (1873)

Next generation sequencing 5 (22)

Phylogeny 20 (261)

Cloud 78 (1071)

Content management 0 (0)

Covid-19 223 (2466)

Medical data 0 (0)

Dental 2 (12)

Epidemiology 20 (234)

Hospital information systems 3 (48)

Imaging 222 (1139)

Imaging development 93 (795)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 27 (198)

Practice 6 (45)

Psychology 11 (133)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 4 (16)

Tools 35 (227)

Typesetting 74 (629)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	14	17
important	62	7
normal	24	14
minor	19	3
wishlist	11	2

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (1873)^*

Open bugs in dependent packages

14 serious, 62 important, 24 normal, 19 minor, 11 wishlist

bambamc (1) Homepage: https://github.com/gt1/bambamc Vcs Debian Med Packaging Team
1096356	bambamc: ftbfs with GCC-15	forky, ftbfs, sid
bamtools (1) Homepage: https://github.com/pezmaster31/bamtools/wiki Vcs Debian Med Packaging Team
1112718	bamtools: FTBFS with CMake 4	forky, ftbfs, sid
cdk (1) Homepage: https://cdk.github.io/ Vcs Debian Java Maintainers
1081606	cdk: run upstream tests during build	help
consensuscore (1) Homepage: https://github.com/PacificBiosciences/ConsensusCore Vcs Debian Med Packaging Team
1105296	consensuscore: FTBFS with make --shuffle=reverse: Fatal error: can't create /build/reproducible-path/consensuscore-1.1.1+dfsg/build/C++/AlignConfig.o: No such file or directory	forky, 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
genometools (2) Homepage: http://genometools.org Vcs Debian Med Packaging Team
1105339	genometools: FTBFS with make --shuffle=reverse: ./obj/gt_config.h:1: error: unterminated #ifndef	forky, ftbfs, sid, trixie
1114122	genometools: FTBFS: src/extended/md5set.c:32:3: error: conflicting types for 'md5_t'; have 'struct <anonymous>'	forky, ftbfs, sid
hdf5 (32) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
638753	libhdf5-serial-1.8.7: threadsafe memory leaks	moreinfo
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
839784	libhdf5-dev: pkg-config file references ONLY the C library
968559	libhdf5-openmpi-dev: hdf5-mpi.pc alternative sometimes goes missing	moreinfo
1023446	libhdf5-openmpi-dev: h5pcc configured as static build	wontfix
1040862	hdf5: S3 VFD pulls in networking dependencies (libcurl), please package it as a VFD plugin	moreinfo
1052250	pkg-config file incorrect for static linking
1100440	hdf5: CVE-2025-2153	security, upstream
1103531	hdf5: CVE-2025-2926	security, upstream
1103532	hdf5: CVE-2025-2925	security, upstream
1103533	hdf5: CVE-2025-2924	security, upstream
1103534	hdf5: CVE-2025-2923	security, upstream
1103536	hdf5: CVE-2025-2915	security, upstream
1103537	hdf5: CVE-2025-2914	security, upstream
1103538	hdf5: CVE-2025-2913	security, upstream
1103539	hdf5: CVE-2025-2912	security, upstream
1103540	hdf5: CVE-2025-2310	security, upstream
1103541	hdf5: CVE-2025-2309	security, upstream
1103542	hdf5: CVE-2025-2308	security, upstream
1105370	hdf5: FTBFS with make --shuffle=reverse: ln: failed to create symbolic link 'hdf5/serial/libhdf5.settings': File exists	forky, ftbfs, sid, trixie
1108155	hdf5: CVE-2025-6269	security, upstream
1108156	hdf5: CVE-2025-6270	fixed-upstream, security, upstream
1108409	hdf5: CVE-2025-6750	security, upstream
1108480	hdf5: CVE-2025-6818	security, upstream
1108481	hdf5: CVE-2025-6817	security, upstream
1108482	hdf5: CVE-2025-6816	security, upstream
1108884	hdf5: CVE-2025-7069	fixed-upstream, security, upstream
1108885	hdf5: CVE-2025-7068	security, upstream
1108886	hdf5: CVE-2025-7067	security, upstream
kineticstools (1) Homepage: https://github.com/PacificBiosciences/kineticsTools Vcs Debian Med Packaging Team
1103315	kineticstools: FTBFS with the nocheck build profile	forky, ftbfs, sid, trixie
kmer (2) Homepage: http://kmer.sourceforge.net Vcs Debian Med Packaging Team
1081273	meryl: Meryl should be packaged separately from new upstream location
1105422	kmer: FTBFS with make --shuffle=reverse: make[2]: *** No rule to make target '/build/reproducible-path/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a', needed by 'atac-driver/chimera/happy-clones-span-clumps'. Stop.	forky, ftbfs, sid, trixie
libace-perl (1) Homepage: https://metacpan.org/release/AcePerl Vcs Debian Med Packaging Team
1097160	libace-perl: ftbfs with GCC-15	forky, ftbfs, sid
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
libbigwig (1) Homepage: https://github.com/dpryan79/libBigWig/ Vcs Debian Med Packaging Team
1112179	libbigwig: undoes t64 rename
libbio-db-hts-perl (1) Homepage: https://metacpan.org/release/Bio-DB-HTS Vcs Debian Med Packaging Team
1102795	libbio-db-hts-perl: add perl-xs-dev to Build-Depends
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
1113115	libbpp-core: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-phyl (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113116	libbpp-phyl: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-phyl-omics (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113117	libbpp-phyl-omics: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-popgen (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113118	libbpp-popgen: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-qt (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113119	libbpp-qt: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-raa (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113120	libbpp-raa: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-seq (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113121	libbpp-seq: FTBFS with CMake 4	forky, ftbfs, sid
libbpp-seq-omics (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1113122	libbpp-seq-omics: FTBFS with CMake 4	forky, ftbfs, sid
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	forky, ftbfs, sid, trixie
1049705	libchado-perl: Fails to build binary packages again after successful build	forky, ftbfs, sid, trixie
libcifpp (1) Homepage: https://github.com/PDB-REDO/libcifpp Vcs Debian Med Packaging Team
1048817	libcifpp: Fails to build source after successful build	forky, ftbfs, sid, trixie
libdivsufsort (1) Homepage: https://github.com/y-256/libdivsufsort Vcs Debian Med Packaging Team
1113140	libdivsufsort: FTBFS with CMake 4	forky, ftbfs, sid
libedlib (1) Homepage: https://github.com/Martinsos/edlib Vcs Debian Med Packaging Team
1113144	libedlib: FTBFS with CMake 4	forky, ftbfs, sid
libgoby-java (1) Homepage: https://campagnelab.org/software/goby/ Vcs Debian Med Packaging Team
1108577	libgoby-java: FTBFS with default Java 25	ftbfs
libmems (1) Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Vcs Debian Med Packaging Team
1110623	libmems ftbfs with boost 1.88	forky, sid
libnhgri-blastall-perl (1) Homepage: ftp://ftp.nhgri.nih.gov/pub/software/blastall/ Vcs Debian Perl Group
1081295	libnhgri-blastall-perl: homepage defunct
libpwiz (1) Homepage: http://proteowizard.sourceforge.net/downloads.shtml Vcs The Debichem Group
1110624	libpwiz ftbfs with boost 1.88	forky, sid
libqes (1) Homepage: https://github.com/kdmurray91/libqes Vcs Debian Med Packaging Team
1113190	libqes: FTBFS with CMake 4	forky, ftbfs, sid
librcsb-core-wrapper (1) Homepage: https://sw-tools.rcsb.org/apps/CORE-WRAPPER/index.html Vcs Debian Med Packaging Team
1105713	librcsb-core-wrapper: FTBFS with make --shuffle=random: src/CifScannerBase.C:24:10: fatal error: CifParser.h: No such file or directory	forky, ftbfs, sid, trixie
librg-blast-parser-perl (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1102800	librg-blast-parser-perl: add perl-xs-dev to Build-Depends
libsbml (1) Homepage: http://www.sbml.org/ Vcs Debian Med Packaging Team
1105459	libsbml: FTBFS with make --shuffle=reverse: FileNotFoundError: [Errno 2] No such file or directory: '/build/reproducible-path/libsbml-5.20.4+dfsg/build/docs/../src/bindings/python/libsbml-doxygen.py'	forky, ftbfs, sid, trixie
libslow5lib (4) Homepage: https://github.com/hasindu2008/slow5lib Vcs Debian Med Packaging Team
1048497	libslow5lib: Fails to build source after successful build	forky, ftbfs, sid, trixie
1049769	libslow5lib: Fails to build binary packages again after successful build	forky, ftbfs, sid, trixie
1069771	libslow5lib FTBFS on big endian architectures	ftbfs
1105533	libslow5lib: FTBFS with make --shuffle=reverse: collect2: error: ld returned 1 exit status	forky, ftbfs, sid, trixie
libsort-key-top-perl (1) Homepage: https://metacpan.org/release/Sort-Key-Top Vcs Debian Med Packaging Team
1102865	libsort-key-top-perl: add perl-xs-dev to Build-Depends
libzerg-perl (2) Homepage: https://tracker.debian.org/libzerg-perl Vcs Debian Med Packaging Team
1081848	libzerg-perl: homepage defunct
1102791	libzerg-perl: add perl-xs-dev to Build-Depends
macromoleculebuilder (2) Homepage: https://simtk.org/projects/rnatoolbox Vcs Debichem Team
1113261	macromoleculebuilder: FTBFS with CMake 4	forky, ftbfs, sid
1114196	macromoleculebuilder: FTBFS: dh_auto_configure: err [too-long-redacted] on -O0" .. returned exit code 1	forky, ftbfs, sid
mcl (1) Homepage: https://micans.org/mcl/ Vcs Debian Med Packaging Team
1091257	mcl: FTBFS on armhf: mcxquery.c:1242:58: error: passing argument 4 of âget_cls_idâ from incompatible pointer type [-Wincompatible-pointer-types]	forky, ftbfs, sid, trixie
minimap2 (1) Homepage: https://github.com/lh3/minimap2 Vcs Debian Med Packaging Team
1099518	minimap2: error: type mismatch in conditional expression on loong64	patch
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
225651	ncbi-tools-x11: want Cn3D++
nim-hts (1) Homepage: https://github.com/brentp/hts-nim Vcs Debian Med Packaging Team
1112655	nim-hts: FTBFS: tests/cigartest.nim(20, 11) Error: type mismatch	forky, ftbfs, sid
nim-lapper (1) Homepage: https://github.com/brentp/nim-lapper Vcs Debian Med Packaging Team
1112656	nim-lapper: FTBFS: src/lapper.nim(132, 10) Error: undeclared identifier: 'shallow'	forky, ftbfs, sid
openmm (2) Homepage: https://simtk.org/projects/openmm Vcs Debichem Team
1095955	openmm: please package v8.2.0
1113359	openmm: FTBFS with CMake 4	forky, ftbfs, sid
openms (3) 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
1112634	openms FTBFS: error from pdflatex	ftbfs
1113360	openms: FTBFS with CMake 4	forky, ftbfs, sid
pybel (1) Homepage: https://pybel.readthedocs.io Vcs Debian Med Packaging Team
1108456	pybel: Drop python3-click (build) dependency	forky, patch, sid, upstream
pyfai (1) Homepage: https://github.com/silx-kit/pyFAI Vcs Debian PaN Maintainers
1078268	pyfai: please make the package build reproducible
python-airr (1) Homepage: https://docs.airr-community.org/en/latest/packages/airr-python/overview.html Vcs Debian Python Team
1083596	python-airr: (build-)depends on deprecated module python3-pkg-resources	forky, sid, trixie
python-anndata (1) Homepage: https://github.com/theislab/anndata Vcs Debian Med Packaging Team
1114293	python-anndata: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.13 returned exit code 13	forky, ftbfs, sid
python-biom-format (1) Homepage: https://biom-format.org/ Vcs Debian Med Packaging Team
1102990	please remove examples from dist-packages directory
python-biopython (2) Homepage: https://biopython.org Vcs Debian Med Packaging Team
1103472	python-biopython: FTBFS with the nocheck build profile	forky, ftbfs, sid, trixie
1114298	python-biopython: FTBFS: dh_auto_test: error: pybuild --test -i python{version} -p 3.13 --test --system=custom "--test-args= \\	forky, ftbfs, sid
python-cogent (2) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1058479	python-cogent: please (temporarily) drop python3-numba dependencies	wontfix
1090269	python-cogent: FTBFS: E ImportError: Numba could not be imported.	ftbfs
python-csb (1) Homepage: https://github.com/csb-toolbox/CSB Vcs Debian Med Packaging Team
1085900	python-csb: Python SyntaxWarning	pending
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-pbcore (1) Homepage: https://github.com/PacificBiosciences/pbcore Vcs Debian Med Packaging Team
1103324	python-pbcore: FTBFS with the nocheck build profile	forky, ftbfs, sid, trixie
python-streamz (2) Homepage: https://github.com/python-streamz/streamz/ Vcs Debian Python Team
1046218	python-streamz: Fails to build source after successful build	forky, ftbfs, sid, trixie
1083714	python-streamz: (build-)depends on deprecated module python3-pkg-resources	forky, sid, trixie
pytorch (15) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
983517	pytorch: Build documentation
1057644	pytorch: build for all supported Python versions	wontfix
1102203	pytorch: CVE-2025-3136	security, upstream
1102219	pytorch: CVE-2025-2148	security, upstream
1102220	pytorch: CVE-2025-2149	security, upstream
1102229	pytorch: CVE-2025-2953	fixed-upstream, security, upstream
1102230	pytorch: CVE-2025-2998	security, upstream
1102231	pytorch: CVE-2025-2999	security, upstream
1102232	pytorch: CVE-2025-3000	security, upstream
1102233	pytorch: CVE-2025-3001	security, upstream
1102236	pytorch: CVE-2025-3121	security, upstream
1103455	pytorch: CVE-2025-3730	fixed-upstream, security, upstream
1104931	pytorch: CVE-2025-4287	security, upstream
1108733	RuntimeError: operator torchvision::nms does not exist
1113436	pytorch: FTBFS with CMake 4	forky, ftbfs, sid
rdkit (1) Homepage: http://www.rdkit.org Vcs Debichem Team
1110701	rdkit ftbfs with GCC 15	forky, ftbfs, sid
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	forky, 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	forky, ftbfs, sid, trixie
seqan3 (2) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
1048951	seqan3: Fails to build source after successful build	forky, ftbfs, sid, trixie
1114372	seqan3: FTBFS: /usr/include/c++/15/bits/stl_iterator.h:1059:9: error: array subscript 3 is outside array bounds of 'std::vector<seqan3::search_result<long unsigned int, seqan3::detail::empty_type, long unsigned int, long unsigned int>, std::allocator<seqan3::search_result<long unsigned int, seqan3::detail::empty_type, long unsigned int, long unsigned int> > > [1]' [-Werror=array-bounds=]	forky, ftbfs, sid
shasta (1) Homepage: https://github.com/chanzuckerberg/shasta Vcs Debian Med Packaging Team
1110602	shasta ftbfs with boost 1.88	forky, sid
snakemake (2) Homepage: https://snakemake.readthedocs.io/ Vcs Debian Med Packaging Team
1088534	snakemake: move from twitter-bootstrap{3,4} to bootstrap-html (v5)	upstream
1095394	snakemake: tests randomly failing or hanging	forky, ftbfs, sid, trixie
spoa (1) Homepage: https://github.com/rvaser/spoa Vcs Debian Med Packaging Team
1097922	spoa: ftbfs with GCC-15	forky, ftbfs, sid
toil (1) Homepage: https://github.com/BD2KGenomics/toil Vcs Debian Med Packaging Team
1108056	toil: FTBFS: Some tests fail on single-cpu systems	forky, ftbfs, help, sid, trixie
unifrac-tools (1) Homepage: https://github.com/biocore/unifrac-binaries Vcs Debian Med Packaging Team
1105659	unifrac-tools: FTBFS with make --shuffle=reverse: ld: cannot find -lssu: No such file or directory	forky, ftbfs, sid, trixie

Open bugs in suggested packages

17 serious, 7 important, 14 normal, 3 minor, 2 wishlist

bbhash (2) Homepage: https://github.com/rizkg/BBHash Vcs Debian Med Packaging Team
1049876	bbhash: FTBFS on 32 bit architectures	forky, ftbfs, sid, trixie
1096359	bbhash: ftbfs with GCC-15	forky, ftbfs, sid
bcbio (1) Homepage: https://github.com/bcbio/bcbio-nextgen Vcs Debian Med Packaging Team
928076	bcbio: Workflows not ready for non-developers to depend on.
bifrost (2) Homepage: https://github.com/pmelsted/bifrost Vcs Debian Med Packaging Team
1096367	bifrost: ftbfs with GCC-15	forky, ftbfs, sid
1112726	bifrost: FTBFS with CMake 4	forky, ftbfs, sid
btllib (1) Homepage: https://github.com/bcgsc/btllib Vcs Debian Med Packaging Team
1104172	btlib - breaks autopkgtests for nthash.
freecontact (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1096651	freecontact: ftbfs with GCC-15	forky, ftbfs, sid
gatk-bwamem (1) Homepage: https://github.com/broadinstitute/gatk-bwamem-jni/ Vcs Debian Med Packaging Team
1096676	gatk-bwamem: ftbfs with GCC-15	forky, ftbfs, sid
genomicsdb (1) Homepage: https://www.genomicsdb.org/ Vcs Debian Med Packaging Team
1092841	genomicsdb: FTBFS with fmtlib 11.1	ftbfs
intake (4) Homepage: https://github.com/intake/intake Vcs Debian Med Packaging Team
1063953	intake: autopkgtest regression with pytest 8
1088416	intake: move from twitter-bootstrap{3,4} to bootstrap-html (v5)	upstream
1094915	intake commatibility with zarr3
1112615	Should intake be removed from unstable?
libmaus2 (4) Homepage: https://gitlab.com/german.tischler/libmaus2 Vcs Debian Med Packaging Team
934619	libmaus2 FTBFS (mostly 32bit): error: no matching function for call	fixed-upstream, ftbfs, help, upstream
1069691	libmaus2: FTBFS on arm64: what(): AutoArray<unsigned long,alloc_type_memalign_cacheline> failed to allocate 1398102 elements (11184816 bytes)	confirmed, ftbfs, upstream
1091144	libmaus2: ftbfs on arm64 prevents building biobambam2	forky, ftbfs, sid, trixie
1091568	libmaus2: FTBFS on i386: ld: ./.libs/libmaus2.so: undefined reference to `libmaus2::posix::PosixFunctions::fstatSizeAndMode(int, long long&, unsigned char*)'	forky, ftbfs, sid, trixie
libtfbs-perl (2) Homepage: http://tfbs.genereg.net Vcs Debian Med Packaging Team
1097278	libtfbs-perl: ftbfs with GCC-15	forky, ftbfs, sid
1102835	libtfbs-perl: add perl-xs-dev to Build-Depends
networkx (2) Homepage: https://networkx.github.io/ Vcs Debian OpenStack
1083502	networkx: (build-)depends on deprecated module python3-pkg-resources	forky, sid, trixie
1093516	python3-networkx: please drop the extraneous runtime dependency on python3-pkg-resources
pbcopper (1) Homepage: https://github.com/PacificBiosciences/pbcopper Vcs Debian Med Packaging Team
1097555	pbcopper: ftbfs with GCC-15	forky, ftbfs, sid
python-ncls (1) Homepage: https://github.com/biocore-ntnu/ncls Vcs Debian Python Team
1046648	python-ncls: Fails to build source after successful build	forky, ftbfs, sid, trixie
python-seqcluster (1) Homepage: https://github.com/lpantano/seqcluster Vcs Debian Med Packaging Team
1035277	python-seqcluster: please add autopkgtests (to add coverage for python3-numpy)
q2-alignment (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076318	q2-alignment hard-codes python 3.11 without depending on it	forky, sid, trixie
q2-cutadapt (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1104285	q2-cutadapt: Fix unstable/amd64 debci failure
q2-demux (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076315	q2-demux hard-codes python 3.11 without depending on it	forky, sid, trixie
q2-feature-classifier (2) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1071882	q2-feature-classifier: FTBFS: unsatisfiable build-dependencies	ftbfs
1114504	Should q2-feature-classifier be removed from unstable?
q2-phylogeny (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076317	q2-phylogeny hard-codes python 3.11 without depending on it
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076914	q2-quality-control: FTBFS with the nocheck build profile	ftbfs
q2-types (3) 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	forky, sid, trixie
1104050	q2-types: Fix unstable/amd64 debci failure	patch
q2cli (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076080	q2cli: FTBFS in sid (python3.12)	ftbfs
q2templates (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1088514	q2templates: move from twitter-bootstrap{3,4} to bootstrap-html (v5)	upstream
qiime (2) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1076314	qiime hard-codes python 3.11 without depending on it	forky, pending, sid, trixie
1084668	qiime: removal of Python standard libraries in Python 3.13	fixed-upstream, pending
r-bioc-genomeinfodb (1) Homepage: https://bioconductor.org/packages/GenomeInfoDb/ Vcs Debian R Packages Maintainers
1111759	r-bioc-genomeinfodb: autopkgtest regression: sequence names not found in the NCBI assembly
r-bioc-mofa (1) Homepage: https://bioconductor.org/packages/MOFA/ Vcs Debian R Packages Maintainers
1085689	r-bioc-mofa: Python SyntaxWarning
r-bioc-org.hs.eg.db (1) Homepage: https://bioconductor.org/packages/org.Hs.eg.db/ Vcs Debian R Packages Maintainers
1083247	r-bioc-org.hs.eg.db: homepage defunct, standardize
savvy (1) Homepage: https://github.com/statgen/savvy Vcs Debian Med Packaging Team
1113483	savvy: FTBFS with CMake 4	forky, ftbfs, sid
terraphast (1) Homepage: https://github.com/amkozlov/terraphast-one Vcs Debian Med Packaging Team
1113569	terraphast: FTBFS with CMake 4	forky, ftbfs, sid

Done bugs

bioperl (1) Homepage: http://www.bioperl.org/ Vcs Debian Med Packaging Team
1113735	libbio-perl-perl: warns with Perl 5.42: Possible precedence problem between ! and numeric eq (==)	forky, sid
consensuscore (1) Homepage: https://github.com/PacificBiosciences/ConsensusCore Vcs Debian Med Packaging Team
1067499	libconsensuscore-dev: ships /usr/include/meson.build
genomicsdb (1) Homepage: https://www.genomicsdb.org/ Vcs Debian Med Packaging Team
1103009	genomicsdb: FTBFS in testing/arm64: tests failed	ftbfs, sid, trixie, upstream
hdf5 (2) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
915807	hdf5: CVE-2017-17507	security, upstream
1114023	hdf5 ftbfs in unstable	forky, ftbfs, sid
htsjdk (1) Homepage: https://samtools.github.io/htsjdk/ Vcs Debian Med Packaging Team
1055447	htsjdk: FTBFS: 35741 tests completed, 9 failed, 10 skipped	bookworm, ftbfs, sid, trixie
htslib (1) Homepage: https://github.com/samtools/htslib Vcs Debian Med Packaging Team
1111788	htslib: autopkgtest regression
intake (2) Homepage: https://github.com/intake/intake Vcs Debian Med Packaging Team
1064752	intake: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.12 3.11" returned exit code 13	forky, ftbfs, sid, trixie
1067969	python3-intake: Please replace python3-appdirs dependency with platformdirs	fixed-upstream, forky, patch, sid, trixie
libfreecontact-perl (2) Homepage: https://rostlab.org/owiki/index.php/FreeContact Vcs Debian Med Packaging Team
1102805	libfreecontact-perl: add perl-xs-dev to Build-Depends
1112626	libfreecontact-perl: FTBFS with Perl 5.42: Could not find a typemap for C type 'ali_t&'	forky, ftbfs, patch, sid, upstream
libssw (1) 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
rdkit (1) Homepage: http://www.rdkit.org Vcs Debichem Team
1086226	rdkit: autopkgtests fail
sra-sdk (1) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1106622	sra-sdk ftbfs with libxml 2.14.x from experimental	forky, ftbfs, patch, sid

^*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