Summary

Bugs of task bio-dev

Total bugs: 175

Open bugs: 111

Fixed bugs: 64

Links to other tasks

Tasks overview

Biology 210 (1939)

Biology development 111 (1060)

Next generation sequencing 6 (42)

Phylogeny 6 (63)

Cloud 41 (477)

Content management 0 (0)

Covid-19 168 (1674)

Medical data 0 (0)

Dental 2 (12)

Epidemiology 10 (87)

Hospital information systems 1 (9)

Imaging 191 (831)

Imaging development 73 (549)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 27 (192)

Practice 6 (45)

Psychology 10 (103)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 4 (16)

Tools 36 (227)

Typesetting 76 (599)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	12	15
important	13	3
normal	30	11
minor	11	4
wishlist	10	2

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (1060)^*

Open bugs in dependent packages

12 serious, 13 important, 30 normal, 11 minor, 10 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'	ftbfs, upstream
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
1091809	consensuscore: FTBFS: error: too few arguments to function Ã¢ÂÂPyObject* SWIG_Python_AppendOutput(PyObject, PyObject, int)Ã¢ÂÂ	ftbfs, sid, trixie
cwltool (1) Homepage: https://cwltool.readthedocs.io/ Vcs Debian Med Packaging Team
1083349	cwltool: (build-)depends on deprecated module python3-pkg-resources	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 (10) 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
htscodecs (1) Homepage: https://github.com/jkbonfield/htscodecs/ Vcs Debian Med Packaging Team
1088745	htscodecs: Please fix the symbols for all amd64	patch
kineticstools (1) Homepage: https://github.com/PacificBiosciences/kineticsTools Vcs Debian Med Packaging Team
1092749	Autopkgtests fail with Python 3.13: ipdSummary output changed	patch
kmer (1) Homepage: http://kmer.sourceforge.net Vcs Debian Med Packaging Team
1081273	meryl: Meryl should be packaged separately from new upstream location
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-eutilities-perl (1) Homepage: https://metacpan.org/release/Bio-EUtilities Vcs Debian Perl Group
1093338	libbio-eutilities-perl: FTBFS: Failed 8/20 test programs. 0/174 subtests failed.	ftbfs, sid, trixie
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
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 (1) Homepage: https://github.com/PDB-REDO/libcifpp Vcs Debian Med Packaging Team
1048817	libcifpp: Fails to build source after successful build	ftbfs, sid, trixie
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
1075199	libpwiz: ftbfs with GCC-14	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
libvcflib (2) Homepage: https://github.com/vcflib/vcflib Vcs Debian Med Packaging Team
1073098	math-numeric-tower-clojure: build-depends on markdown	pending
1074044	libvcflib: Improve support for loongarch64	patch, pending
libzerg-perl (1) Homepage: https://tracker.debian.org/libzerg-perl Vcs Debian Med Packaging Team
1081848	libzerg-perl: homepage defunct
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]	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++
openmm (2) Homepage: https://simtk.org/projects/openmm Vcs Debichem Team
1080690	Missing Build-Depends on python3-setuptools	sid, trixie
1085752	openmm: Python SyntaxWarning
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
pyfai (3) Homepage: https://github.com/silx-kit/pyFAI Vcs Debian PaN Maintainers
1077400	pyfai: FTBFS: src/pyFAI/ext/sparse_utils.cpython-312-x86_64-linux-gnu.so.p/src/pyFAI/ext/sparse_utils.pyx.c:45695:17: error: assignment to âstruct __pyx_obj_5pyFAI_3ext_12sparse_utils_Vector â from incompatible pointer type âPyObject â {aka âstruct _object *â} [-Wincompatible-pointer-types]	ftbfs, sid, trixie
1078268	pyfai: please make the package build reproducible
1090744	pyfai: Debci errors with latest pocl
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	sid, 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
1092791	FTBFS: TypeError: GPR.__init__() takes from 1 to 2 positional arguments but 3 were given	fixed-upstream, ftbfs, upstream
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 (4) Homepage: https://github.com/linnarsson-lab/loompy Vcs Debian Med Packaging Team
1058482	python-loompy: please (temporarily) drop python3-numba dependencies
1083659	python-loompy: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
1085932	python-loompy: Python SyntaxWarning
1090279	python-loompy: FTBFS: E ImportError: cannot import name '_typeconv' from 'numba.core.typeconv'	ftbfs
python-pbcommand (1) Homepage: https://pbcommand.readthedocs.org/en/latest/ Vcs Debian Med Packaging Team
1093231	python-pbcommand: unable to import pbcommand with python 3.13	patch
python-pbcore (2) Homepage: https://github.com/PacificBiosciences/pbcore Vcs Debian Med Packaging Team
1089095	python-pbcore: please make the build reproducible	patch
1093230	python-pbcore: unable to import pbcore with python default 3.13	patch
python-pysam (1) Homepage: https://pysam.readthedocs.org/en/latest Vcs Debian Med Packaging Team
1087457	python3-pysam: autopkgtest regression with htslib 1.21	fixed-upstream, upstream
python-streamz (2) Homepage: https://github.com/python-streamz/streamz/ Vcs Debian Python Team
1046218	python-streamz: Fails to build source after successful build	ftbfs, sid, trixie
1083714	python-streamz: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
pytorch (4) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
983517	pytorch: Build documentation
1057644	pytorch: build for all supported Python versions	wontfix
1083727	pytorch: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
1083729	pytorch: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
r-cran-seurat (1) Homepage: https://cran.r-project.org/package=Seurat Vcs Debian R Packages Maintainers
1091919	r-cran-seurat: autopkgtest regression on riscv64 and s390x
rdkit (2) Homepage: http://www.rdkit.org Vcs Debichem Team
927955	python-rdkit: missing module pyAvalonTools
1093086	rdkit: FTBFS on big-endian architectures	ftbfs
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 (2) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
1048951	seqan3: Fails to build source after successful build	ftbfs, sid, trixie
1093357	seqan3: FTBFS: The following tests FAILED: 8356 - utility/views/enforce_random_access_test::enforce_random_access_test.adaptor<sentinel_pseudo_random_access_range> (Failed)	ftbfs
snakemake (1) Homepage: https://snakemake.readthedocs.io/ Vcs Debian Med Packaging Team
1088534	snakemake: move from twitter-bootstrap{3,4} to bootstrap-html (v5)	upstream
sra-sdk (2) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1084404	sra-sdk: move from fuse to fuse3
1087096	sra-sdk: Python SyntaxWarning	patch, pending
toil (3) Homepage: https://github.com/BD2KGenomics/toil Vcs Debian Med Packaging Team
1073358	toil: FTBFS: ModuleNotFoundError: No module named 'boto'	ftbfs, sid, trixie
1084681	toil: removal of Python standard libraries in Python 3.13	fixed-upstream, patch
1087116	toil: Python SyntaxWarning	patch, pending

Open bugs in suggested packages

15 serious, 3 important, 11 normal, 4 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	sid, trixie
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	patch, pending
1058455	btllib: add build support for loongarch64	patch
genomicsdb (1) Homepage: https://www.genomicsdb.org/ Vcs Debian Med Packaging Team
1092841	genomicsdb: FTBFS with fmtlib 11.1	ftbfs
golang-github-biogo-hts (2) Homepage: https://github.com/biogo/hts Vcs Debian Go Packaging Team
1091101	golang-github-biogo-hts: FTBFS: bgzf_test.go:118: Expected error:read /tmp/TestEOF2778629558/002: is a directory got:readat /tmp/TestEOF2778629558/002: negative offset	ftbfs, sid
1091102	golang-github-biogo-hts: FTBFS on 32bit architectures	ftbfs, sid
intake (4) 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	patch, pending, sid, trixie
1088416	intake: move from twitter-bootstrap{3,4} to bootstrap-html (v5)	upstream
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	ftbfs, sid, trixie
1091568	libmaus2: FTBFS on i386: ld: ./.libs/libmaus2.so: undefined reference to `libmaus2::posix::PosixFunctions::fstatSizeAndMode(int, long long&, unsigned char*)'	ftbfs, sid, trixie
networkx (2) Homepage: https://networkx.github.io/ Vcs Debian OpenStack
1083502	networkx: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
1093516	python3-networkx: please drop the extraneous runtime dependency on python3-pkg-resources
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 (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	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
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)	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	pending, sid, trixie
1084668	qiime: removal of Python standard libraries in Python 3.13	fixed-upstream, pending
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
ruby-rgfa (1) Homepage: https://github.com/ggonnella/rgfa Vcs Debian Med Packaging Team
1092702	ruby-rgfa: FTBFS with ruby3.3: ERROR: Test "ruby3.3" failed: Error: test_field_writer_H(TestRGFAFieldWriter): NoMethodError: undefined method `trust' for an instance of RGFA::ByteArray	ftbfs, sid, trixie

Done bugs

cdk (1) Homepage: https://cdk.github.io/ Vcs Debian Java Maintainers
1090200	cdk: FTBFS: [ERROR] Cannot find parent dependency org.openscience.cdk:cdk-app:pom:2.9	ftbfs
consensuscore (1) Homepage: https://github.com/PacificBiosciences/ConsensusCore Vcs Debian Med Packaging Team
1067499	libconsensuscore-dev: ships /usr/include/meson.build
fast5 (1) Homepage: https://github.com/mateidavid/fast5 Vcs Debian Med Packaging Team
1090898	fast5: autopkgtest regressions with HDF5 1.14	patch
gffread (1) 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
hdf5 (14) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
715959	[Mayhem] Bug report on hdf5-tools: gif2h5 crashes with exit status 139
740613	libhdf5-7: Please include support for compression with libaec
748587	Duplicate and conflicting definitions of variable FILENAME	upstream
915807	hdf5: CVE-2017-17507	security, upstream
958174	hdf5: please add the hdf5plugins
1023820	hdf5: Dependencies not tight enough
1031726	hdf5: CVE-2022-26061 CVE-2022-25972 CVE-2022-25942	security, upstream
1034807	hdf5: CVE-2018-11205	security, upstream
1034838	hdf5: CVE-2019-8396 CVE-2019-8398	security
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
1067950	hdf5: diff for NMU version 1.10.10+repack-3.3	patch
1091911	hdf5 FTBFS on hppa	ftbfs
htsjdk (8) 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
1091484	libgoby-java: FTBFS: Tries to access Internet during build	confirmed, ftbfs, sid, trixie
1091589	Wrongly requires mjson in its POM file	confirmed, ftbfs, sid, trixie
1091591	libhttp-nio-java: FTBFS: dh_auto_test: error: gradle --info --console plain --offline --stacktrace --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. -Duser.name=debian -Ddebian.package=libhttp-nio-java -Dfile.encoding=UTF-8 --parallel --max-workers=8 test returned exit code 1	confirmed, ftbfs, sid, trixie
1091593	igv: FTBFS: Could not resolve org.sharegov:mjson:debian.	confirmed, ftbfs, sid, trixie
1091599	gkl: FTBFS: Could not resolve org.sharegov:mjson:debian.	confirmed, ftbfs, sid, trixie
1091605	snpsift: FTBFS: [ERROR] Cannot access central (https://repo.maven.apache.org/maven2) in offline mode and the artifact org.sharegov:mjson:jar:debian has not been downloaded from it before.	confirmed, ftbfs, sid, trixie
1091610	snpeff: FTBFS: [ERROR] Cannot access typesafe (https://repo.typesafe.com/typesafe/releases/) in offline mode and the artifact org.sharegov:mjson:jar:debian has not been downloaded from it before.	confirmed, ftbfs, sid, trixie
librcsb-core-wrapper (2) 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
1089265	librcsb-core-wrapper: FTBFS with make 4.4.1	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
libsbml (3) Homepage: http://www.sbml.org/ Vcs Debian Med Packaging Team
1079883	libsbml: please drop mono support
1091136	libsbml: FTBFS: make: *** [debian/rules:60: binary] Error 255	ftbfs, sid, trixie
1092075	libsbml ftbfs with Python 3.13 as the default	fixed-upstream, ftbfs, sid, trixie, 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
mcl (1) Homepage: https://micans.org/mcl/ Vcs Debian Med Packaging Team
1046152	mcl: Fails to build source after successful build	ftbfs, sid, trixie
openmm (1) Homepage: https://simtk.org/projects/openmm Vcs Debichem Team
1061826	python-pdbfixer fails its autopkg tests with Python 3.12	ftbfs, sid, trixie
pyfai (1) Homepage: https://github.com/silx-kit/pyFAI Vcs Debian PaN Maintainers
1085805	pyfai: Python SyntaxWarning
python-freecontact (1) Homepage: https://rostlab.org/owiki/index.php/FreeContact Vcs Debian Med Packaging Team
1092510	python-freecontact: FTBFS: ImportError: /lib/x86_64-linux-gnu/libboost_python313.so.1.83.0: undefined symbol: PyObject_DelAttr	ftbfs, patch, sid, trixie
python-pybedtools (1) Homepage: https://daler.github.io/pybedtools/ Vcs Debian Med Packaging Team
1090283	python-pybedtools: FTBFS: NameError: name 'iterator' is not defined	ftbfs
python-pyflow (2) 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
1081243	python3-pyflow: helloWorld and other examples not runnable, possibly since python2 dropped	upstream, wontfix
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
pytorch (4) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
994423	pytorch: Baseline violation on armhf	bookworm, bullseye, experimental, ftbfs, sid, trixie
1088810	pytorch: FTBFS with Make 4.4.1	ftbfs, patch, sid, trixie
1090052	pytorch: missing error trapping in Makefiles
1090053	libtorch2.5: installs dangling symlink /usr/lib/x86_64-linux-gnu/libnnapi_backend.so.2.5 deleted by ldconfig
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-biovizbase (1) Homepage: https://bioconductor.org/packages/biovizBase/ Vcs Debian R Packages Maintainers
1091048	r-bioc-biovizbase: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-cummerbund (1) Homepage: https://bioconductor.org/packages/cummeRbund/ Vcs Debian R Packages Maintainers
1091045	r-bioc-cummerbund: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-ensembldb (1) Homepage: https://bioconductor.org/packages/ensembldb/ Vcs Debian R Packages Maintainers
1091051	r-bioc-ensembldb: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-genomicfeatures (1) Homepage: https://bioconductor.org/packages/GenomicFeatures/ Vcs Debian R Packages Maintainers
1091053	r-bioc-genomicfeatures: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-genomicranges (1) Homepage: https://bioconductor.org/packages/GenomicRanges/ Vcs Debian R Packages Maintainers
1088612	src:r-bioc-genomicranges: fails to migrate to testing for too long: triggers autopkgtest failure in r-bioc-variantannotation	sid, trixie
r-bioc-gviz (1) Homepage: https://bioconductor.org/packages/Gviz/ Vcs Debian R Packages Maintainers
1091065	r-bioc-gviz: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-purecn (1) Homepage: https://bioconductor.org/packages/PureCN/ Vcs Debian R Packages Maintainers
1091060	r-bioc-purecn: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-structuralvariantannotation (2) Homepage: https://bioconductor.org/packages/StructuralVariantAnnotation/ Vcs Debian R Packages Maintainers
1025045	r-bioc-structuralvariantannotation: Test failures in autopkgtest	bookworm-ignore, upstream
1091026	r-bioc-structuralvariantannotation: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-titancna (1) Homepage: https://bioconductor.org/packages/TitanCNA/ Vcs Debian R Packages Maintainers
1091043	r-bioc-titancna: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-bioc-variantannotation (1) Homepage: https://bioconductor.org/packages/VariantAnnotation/ Vcs Debian R Packages Maintainers
1091080	r-bioc-variantannotation: FTBFS: build-dependency not installable: r-api-bioc-3.20	ftbfs
r-cran-amap (1) Homepage: https://cran.r-project.org/package=amap Vcs Debian R Packages Maintainers
1088634	src:r-cran-amap: fails to migrate to testing for too long: autopkgtest failure on i386	sid, trixie
rdkit (2) Homepage: http://www.rdkit.org Vcs Debichem Team
1083076	python3-rdkit: SEGFAULT on import on armhf and armel	pending
1086226	rdkit: autopkgtests fail
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
seqan3 (1) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
1087373	seqan3: FTBFS: Some parallel tests fail on single-cpu systems	ftbfs

^*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