Summary

Bugs of task bio-dev

Total bugs: 202

Open bugs: 141

Fixed bugs: 61

Links to other tasks

Tasks overview

Biology 325 (1747)

Biology development 141 (662)

Next generation sequencing 8 (42)

Phylogeny 15 (90)

Cloud 52 (288)

Content management 0 (0)

Covid-19 173 (1328)

Medical data 1 (1)

Dental 1 (3)

Epidemiology 3 (60)

Hospital information systems 1 (9)

Imaging 229 (1000)

Imaging development 73 (567)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 29 (204)

Practice 7 (42)

Psychology 7 (39)

Rehabilitation 1 (0)

Research 0 (0)

Statistics 2 (4)

Tools 38 (241)

Typesetting 69 (559)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	1	2
important	10	2
normal	22	8
minor	72	14
wishlist	9	1

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (662)^*

Open bugs in dependent packages

1 serious, 10 important, 22 normal, 72 minor, 9 wishlist

bamtools (2) 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
1043881	bamtools: Fails to build source after successful build	ftbfs, sid, trixie
biococoa (1) Homepage: https://bioinformatics.org/biococoa/ Vcs Debian Med Packaging Team
749736	biococoa: GCC warnings that may lead to runtime issues with new GNUstep libraries	bookworm, bullseye, buster, jessie, sid, stretch, trixie
biosquid (2) Homepage: http://eddylab.org/software.html Vcs Debian-Med Packaging Team
1043996	biosquid: Fails to build source after successful build	ftbfs, sid, trixie
1049808	biosquid: Fails to build binary packages again after successful build	ftbfs, sid, trixie
bio-tradis (1) Homepage: https://github.com/sanger-pathogens/Bio-Tradis Vcs Debian Med Packaging Team
1043774	bio-tradis: Fails to build source after successful build	ftbfs, sid, trixie
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
genometools (1) Homepage: http://genometools.org Vcs Debian Med Packaging Team
1044467	genometools: Fails to build source after successful build	ftbfs, sid, trixie
hdf5 (19) 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	security, upstream
1034807	hdf5: CVE-2018-11205	security, upstream
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
htscodecs (2) Homepage: https://github.com/jkbonfield/htscodecs/ Vcs Debian Med Packaging Team
1048106	htscodecs: Fails to build source after successful build	ftbfs, sid, trixie
1049483	htscodecs: Fails to build binary packages again after successful build	ftbfs, sid, trixie
htseq (1) Homepage: https://www-huber.embl.de/users/anders/HTSeq/doc/overview.html Vcs Debian Med Packaging Team
1046620	htseq: Fails to build source after successful build	ftbfs, sid, 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-asn1-entrezgene-perl (1) Homepage: https://metacpan.org/release/Bio-ASN1-EntrezGene Vcs Debian Perl Group
1047073	libbio-asn1-entrezgene-perl: Fails to build source after successful build	ftbfs, sid, trixie
libbio-samtools-perl (1) Homepage: https://metacpan.org/release/Bio-SamTools Vcs Debian Perl Group
1046631	libbio-samtools-perl: Fails to build source after successful build	ftbfs, sid, trixie
libbio-scf-perl (2) Homepage: https://metacpan.org/release/Bio-SCF Vcs Debian Perl Group
599961	libbio-scf-perl: FTBFS: Neither BIG nor LITTLE endian defined
1047210	libbio-scf-perl: Fails to build source after successful build	ftbfs, sid, trixie
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	bookworm, 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	bookworm, 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	bookworm, sid, trixie
libbpp-qt (1) Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Vcs Debian Med Packaging Team
1015476	libbpp-qt: ftbfs with LTO (link time optimization) enabled	bookworm, 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	bookworm, sid, trixie
libbpp-seq (1) 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	bookworm, sid, trixie
libbpp-seq-omics (1) 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	bookworm, sid, trixie
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
libedlib (2) Homepage: https://github.com/Martinsos/edlib Vcs Debian Med Packaging Team
1015484	libedlib: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
1048671	libedlib: Fails to build source after successful build	ftbfs, sid, trixie
libfastahack (1) Homepage: https://github.com/ekg/fastahack Vcs Debian Med Packaging Team
1015486	libfastahack: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
libgoby-java (1) Homepage: https://campagnelab.org/software/goby/ Vcs Debian Med Packaging Team
1045612	libgoby-java: Fails to build source after successful build	ftbfs, pending, sid, trixie
libgo-perl (1) Homepage: http://geneontology.sourceforge.net/ Vcs Debian Med Packaging Team
1046227	libgo-perl: Fails to build source after successful build	ftbfs, sid, trixie
libjloda-java (1) Homepage: https://github.com/danielhuson/jloda Vcs Debian Med Packaging Team
1047938	libjloda-java: Fails to build source after successful build	ftbfs, sid, trixie
libmuscle (1) 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	bookworm, sid, trixie
libncl (1) Homepage: https://github.com/mtholder/ncl Vcs Debian Med Packaging Team
1015505	libncl: ftbfs with LTO (link time optimization) enabled	bookworm, 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
libpll (2) Homepage: http://www.libpll.org/ Vcs Debian Med Packaging Team
1046603	libpll: Fails to build source after successful build	ftbfs, sid, trixie
1049759	libpll: Fails to build binary packages again after successful build	ftbfs, sid, trixie
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
librostlab-blast (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1048643	librostlab-blast: Fails to build source after successful build	ftbfs, sid, trixie
libseqlib (1) Homepage: https://github.com/walaj/SeqLib Vcs Debian Med Packaging Team
1047821	libseqlib: Fails to build source after successful build	ftbfs, sid, trixie
libslow5lib (2) 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
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	bookworm, sid, trixie
libtabixpp (2) Homepage: https://github.com/ekg/tabixpp Vcs Debian Med Packaging Team
1015526	libtabixpp: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
1049726	libtabixpp: Fails to build binary packages again after successful build	ftbfs, sid, trixie
libwfa2 (1) Homepage: https://github.com/smarco/WFA2-lib Vcs Debian Med Packaging Team
1045603	libwfa2: Fails to build source after successful build	ftbfs, 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
minimap2 (1) Homepage: https://github.com/lh3/minimap2 Vcs Debian Med Packaging Team
1046060	minimap2: Fails to build source after successful build	ftbfs, sid, trixie
mirtop (1) Homepage: https://github.com/miRTop/mirtop Vcs Debian Med Packaging Team
1044055	mirtop: test failure with pandas 2.0
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 (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
openmm (1) Homepage: https://simtk.org/projects/openmm Vcs Debichem Team
992180	openmm FTBFS on \!amd64/arm64/hurd-i386/i386/ppc64el	ftbfs
pyranges (1) Homepage: https://github.com/biocore-ntnu/pyranges Vcs Debian Med Packaging Team
1044064	pyranges: FTBFS with pandas 2.0
python-anndata (1) Homepage: https://github.com/theislab/anndata Vcs Debian Med Packaging Team
1044072	python-anndata: FTBFS with pandas 2.0
python-biom-format (1) Homepage: https://biom-format.org/ Vcs Debian Med Packaging Team
1044074	python-biom-format: FTBFS with pandas 2.0
python-cutadapt (1) Homepage: https://pypi.python.org/pypi/cutadapt Vcs Debian Med Packaging Team
1045930	python-cutadapt: Fails to build source after successful build	ftbfs, pending, sid, trixie
python-dendropy (1) Homepage: https://dendropy.org/ Vcs Debian Med Packaging Team
1049497	python-dendropy: Fails to build binary packages again after successful build	ftbfs, sid, trixie
python-nanoget (1) Homepage: https://github.com/wdecoster/nanoget Vcs Debian Med Packaging Team
1044056	python-nanoget: test failure with pandas 2.0
python-pairix (1) Homepage: https://github.com/4dn-dcic/pairix Vcs Debian Med Packaging Team
1046425	python-pairix: Fails to build source after successful build	ftbfs, sid, trixie
python-pyani (1) Homepage: https://github.com/widdowquinn/pyani Vcs Debian Med Packaging Team
1044066	python-pyani: FTBFS with pandas 2.0
python-pybedtools (2) Homepage: https://daler.github.io/pybedtools/ Vcs Debian Med Packaging Team
1042651	python-pybedtools: FTBFS with Sphinx 7.1, docutils 0.20: error: invalid command 'build_sphinx'	ftbfs
1048006	python-pybedtools: Fails to build source after successful build	ftbfs, sid, trixie
python-pymummer (1) Homepage: https://github.com/sanger-pathogens/pymummer Vcs Debian Med Packaging Team
1046452	python-pymummer: Fails to build source after successful build	ftbfs, sid, trixie
python-pysam (1) Homepage: https://pysam.readthedocs.org/en/latest Vcs Debian Med Packaging Team
1047165	python-pysam: Fails to build source after successful build	ftbfs, sid, 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-pyvcf (1) Homepage: https://github.com/jamescasbon/PyVCF Vcs Debian Med Packaging Team
1046140	python-pyvcf: Fails to build source after successful build	ftbfs, sid, trixie
python-skbio (3) Homepage: https://github.com/biocore/scikit-bio Vcs Debian Med Packaging Team
1044065	python-skbio: FTBFS with pandas 2.0
1048510	python-skbio: Fails to build source after successful build	ftbfs, sid, trixie
1049511	python-skbio: Fails to build binary packages again after successful build	ftbfs, sid, trixie
python-sqt (1) Homepage: https://bitbucket.org/marcelm/sqt Vcs Debian Med Packaging Team
1049145	python-sqt: 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
python-tinyalign (1) Homepage: https://github.com/marcelm/tinyalign Vcs Debian Med Packaging Team
1045932	python-tinyalign: Fails to build source after successful build	ftbfs, pending, sid, trixie
pytorch (1) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
983517	pytorch: Build documentation
r-cran-gprofiler2 (1) Homepage: https://cran.r-project.org/package=gprofiler2 Vcs Debian R Packages Maintainers
1045833	r-cran-gprofiler2: Fails to build source after successful build	ftbfs, sid, trixie
rdkit (4) 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
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
1045316	snakemake: Fails to build source after successful build	ftbfs, pending, sid, trixie
spoa (1) Homepage: https://github.com/rvaser/spoa Vcs Debian Med Packaging Team
1015667	spoa: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
sra-sdk (1) 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
unifrac (1) Homepage: https://github.com/biocore/unifrac Vcs Debian Med Packaging Team
1042198	unifrac: FTBFS: AssertionError: 0.9999999403953552 != 1.0	ftbfs, sid, trixie
unifrac-tools (1) Homepage: https://github.com/biocore/unifrac-binaries Vcs Debian Med Packaging Team
1048281	unifrac-tools: Fails to build source after successful build	ftbfs, sid, trixie

Open bugs in suggested packages

2 serious, 2 important, 8 normal, 14 minor, 1 wishlist

bbhash (2) Homepage: https://github.com/rizkg/BBHash Vcs Debian Med Packaging Team
1043819	bbhash: Fails to build source after successful build	ftbfs, sid, trixie
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 (2) Homepage: https://github.com/bcgsc/btllib Vcs Debian Med Packaging Team
1022772	btllib: fails to build on 32-bit archs
1032358	btllib: Depends on libsdsl-dev, breaking installability when not needed	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
conda-package-handling (1) Homepage: https://github.com/conda/conda-package-handling Vcs Debian Med Packaging Team
976506	conda-package-handling: FTBFS in bullseye (failing tests)	bullseye, ftbfs, patch, sid, trixie
ctdconverter (1) Homepage: https://github.com/WorkflowConversion/CTDConverter Vcs Debian Med Packaging Team
1045042	ctdconverter: Fails to build source after successful build	ftbfs, sid, trixie
freecontact (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1049797	freecontact: Fails to build binary packages again after successful build	ftbfs, sid, trixie
intake (2) Homepage: https://github.com/intake/intake Vcs Debian Med Packaging Team
1044050	intake: FTBFS with pandas 2.0
1050623	intake: autopkgtest needs update for dask 2023.8.0	ftbfs, sid, trixie
libmaus2 (1) 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
minimap (1) Homepage: https://github.com/lh3/minimap Vcs Debian Med Packaging Team
1049859	minimap: Fails to build binary packages again after successful build	ftbfs, sid, 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 (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-demux (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1045829	q2-demux: Fails to build source after successful build	ftbfs, sid, trixie
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1044060	q2-quality-control: test failure with pandas 2.0
q2-taxa (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1048362	q2-taxa: Fails to build source after successful build	ftbfs, sid, trixie
q2templates (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1044068	q2templates: FTBFS with pandas 2.0
r-bioc-affxparser (1) Homepage: https://bioconductor.org/packages/affxparser/ Vcs Debian R Packages Maintainers
1024580	r-bioc-affxparser: FTBFS on hppa - cannot handle R_PARISC_PCREL17F	ftbfs, patch
r-bioc-affyio (1) Homepage: https://bioconductor.org/packages/affyio/ Vcs Debian R Packages Maintainers
1049205	r-bioc-affyio: Fails to build source after successful build	ftbfs, sid, trixie
r-bioc-makecdfenv (1) Homepage: https://bioconductor.org/packages/makecdfenv/ Vcs Debian R Packages Maintainers
1049248	r-bioc-makecdfenv: Fails to build source after successful build	ftbfs, sid, trixie
r-cran-dt (1) Homepage: https://cran.r-project.org/package=DT Vcs Debian R Packages Maintainers
998030	r-cran-dt: Add xdg-open app open attempts as recommended	a11y
r-cran-fastcluster (2) Homepage: https://cran.r-project.org/package=fastcluster Vcs Debian R Packages Maintainers
1045485	r-cran-fastcluster: Fails to build source after successful build	ftbfs, sid, trixie
1049523	r-cran-fastcluster: Fails to build binary packages again after successful build	ftbfs, sid, trixie
terraphast (1) Homepage: https://github.com/amkozlov/terraphast-one Vcs Debian Med Packaging Team
1049550	terraphast: Fails to build binary packages again after successful build	ftbfs, sid, trixie

Done bugs

biomaj3 (1) Homepage: https://github.com/genouest/biomaj Vcs Debian Med Packaging Team
1043827	biomaj3: Fails to build source after successful build	ftbfs, sid, trixie
btllib (1) Homepage: https://github.com/bcgsc/btllib Vcs Debian Med Packaging Team
1049886	btllib: FTBFS on armhf due to tests timing out	ftbfs, sid, trixie
conda-package-handling (1) Homepage: https://github.com/conda/conda-package-handling Vcs Debian Med Packaging Team
1045100	conda-package-handling: Fails to build source after successful build	ftbfs, sid, trixie
ctdopts (1) Homepage: https://github.com/WorkflowConversion/CTDopts Vcs Debian Med Packaging Team
1045084	ctdopts: Fails to build source after successful build	ftbfs, sid, trixie
cwlformat (1) Homepage: https://github.com/rabix/cwl-format Vcs Debian Med Packaging Team
1044618	cwlformat: Fails to build source after successful build	ftbfs, sid, trixie
fast5 (1) Homepage: https://github.com/mateidavid/fast5 Vcs Debian Med Packaging Team
1044843	fast5: Fails to build source after successful build	ftbfs, sid, trixie
gatb-core (1) Homepage: https://github.com/GATB/gatb-core Vcs Debian Med Packaging Team
1015412	gatb-core: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
gfapy (1) Homepage: https://github.com/ggonnella/gfapy Vcs Debian Med Packaging Team
1044916	gfapy: Fails to build source after successful build	ftbfs, sid, trixie
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 (1) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
972537	please add --enable-ros3-vfd to the build options to allow RO access to HDF5 on S3
libgenome (1) Homepage: https://sourceforge.net/projects/libgenome/ Vcs Debian Med Packaging Team
1015488	libgenome: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
librostlab (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1042662	librostlab: FTBFS with Sphinx 7.1, docutils 0.20: make: *** [debian/rules:8: binary] Error 25	ftbfs
libseqlib (1) Homepage: https://github.com/walaj/SeqLib Vcs Debian Med Packaging Team
1015520	libseqlib: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
libstatgen (1) Homepage: https://genome.sph.umich.edu/wiki/C++_Library:_libStatGen Vcs Debian Med Packaging Team
1042116	libstatgen: FTBFS: dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols file: see diff output below	ftbfs, sid, trixie
libthread-pool (1) Homepage: https://github.com/rvaser/thread_pool Vcs Debian Med Packaging Team
1032532	libthread-pool: fails to compile on 32bit platforms	patch
pbbam (1) Homepage: https://pbbam.readthedocs.org/en/latest/index.html Vcs Debian Med Packaging Team
1043584	pbbam FTBFS with pbcopper 2.2.0	ftbfs, sid, trixie
pyfastx (1) Homepage: https://github.com/lmdu/pyfastx Vcs Debian Med Packaging Team
1045826	pyfastx: Fails to build source after successful build	ftbfs, sid, trixie
pyranges (1) Homepage: https://github.com/biocore-ntnu/pyranges Vcs Debian Med Packaging Team
1042046	pyranges: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.11 returned exit code 13	ftbfs, sid, trixie
python-bcbio-gff (1) Homepage: https://github.com/chapmanb/bcbb/tree/master/gff Vcs Debian Med Packaging Team
1046655	python-bcbio-gff: Fails to build source after successful build	ftbfs, sid, trixie
python-bel-resources (1) Homepage: https://github.com/cthoyt/bel-resources Vcs Debian Med Packaging Team
1047173	python-bel-resources: Fails to build source after successful build	ftbfs, sid, trixie
python-bioframe (1) Homepage: https://github.com/open2c/bioframe Vcs Debian Med Packaging Team
1045752	python-bioframe: Fails to build source after successful build	ftbfs, sid, trixie
python-cgelib (1) Homepage: https://bitbucket.org/genomicepidemiology/cgelib Vcs Debian Med Packaging Team
1048964	python-cgelib: Fails to build source after successful build	ftbfs, sid, trixie
python-cigar (1) Homepage: https://github.com/brentp/cigar Vcs Debian Med Packaging Team
1047698	python-cigar: Fails to build source after successful build	ftbfs, sid, trixie
python-cobra (1) Homepage: https://opencobra.github.io/cobrapy/ Vcs Debian Med Packaging Team
1042310	python-cobra: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.11 returned exit code 13	ftbfs, sid, trixie
python-cooler (1) Homepage: https://github.com/mirnylab/cooler Vcs Debian Med Packaging Team
1045711	python-cooler: Fails to build source after successful build	ftbfs, sid, trixie
python-csb (1) Homepage: https://github.com/csb-toolbox/CSB Vcs Debian Med Packaging Team
1049301	python-csb: Fails to build source after successful build	ftbfs, sid, trixie
python-dendropy (1) Homepage: https://dendropy.org/ Vcs Debian Med Packaging Team
1045708	python-dendropy: Fails to build source after successful build	ftbfs, sid, trixie
python-gffutils (1) Homepage: https://daler.github.io/gffutils Vcs Debian Med Packaging Team
1049164	python-gffutils: Fails to build source after successful build	ftbfs, sid, trixie
python-intervaltree-bio (1) Homepage: https://github.com/konstantint/intervaltree-bio Vcs Debian Med Packaging Team
1048197	python-intervaltree-bio: Fails to build source after successful build	ftbfs, sid, trixie
python-nanoget (1) Homepage: https://github.com/wdecoster/nanoget Vcs Debian Med Packaging Team
1048906	python-nanoget: Fails to build source after successful build	ftbfs, sid, trixie
python-pangolearn (1) Homepage: https://github.com/cov-lineages/pangoLEARN Vcs Debian Med Packaging Team
1045604	python-pangolearn: Fails to build source after successful build	ftbfs, sid, trixie
python-parasail (1) Homepage: https://github.com/jeffdaily/parasail-python Vcs Debian Med Packaging Team
1047143	python-parasail: Fails to build source after successful build	ftbfs, sid, trixie
python-wdlparse (1) Homepage: https://github.com/DataBiosphere/wdl-parsers Vcs Debian Med Packaging Team
1048696	python-wdlparse: Fails to build source after successful build	ftbfs, sid, trixie
pytorch (8) Homepage: https://pytorch.org/ Vcs Debian Deep Learning Team
994423	pytorch: Baseline violation on armhf	bookworm, bullseye, ftbfs, sid
1024903	pytorch: CVE-2022-45907: torch.jit.annotations.parse_type_line prone to command injection	fixed-upstream, security, upstream
1031687	libtorch-dev: ATEN_INCLUDE_DIR in ATenConfig.cmake uses build path
1035458	libtorch-dev: broken symlinks: /usr/lib/x86_64-linux-gnu/libcaffe2_.so -> libcaffe2_.so.1.13
1037824	pytorch: ftbfs with GCC-13	experimental, ftbfs, sid, trixie
1050175	Missing symbol when importing torch
1051258	pytorch2 ftbfs on ppc64el	fixed-upstream, patch, sid, trixie
1051828	pytorch: needs-root for autopkgtests?
q2-alignment (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1048491	q2-alignment: Fails to build source after successful build	ftbfs, sid, trixie
q2cli (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1045721	q2cli: Fails to build source after successful build	ftbfs, sid, trixie
q2-metadata (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1047153	q2-metadata: Fails to build source after successful build	ftbfs, sid, trixie
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1029700	q2-quality-control: tests fail with scipy 1.10
q2-quality-filter (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1045458	q2-quality-filter: Fails to build source after successful build	ftbfs, sid, trixie
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-bitseq (1) Homepage: https://bioconductor.org/packages/BitSeq/ Vcs Debian R Packages Maintainers
1024661	r-bioc-bitseq: orphaned upstream and blocking BioC 3.16 transition	ftbfs
r-bioc-metagenomeseq (1) Homepage: https://bioconductor.org/packages/metagenomeSeq/ Vcs Debian R Packages Maintainers
1050026	r-bioc-metagenomeseq: autopkgtest regression	upstream
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
rdkit (3) Homepage: http://www.rdkit.org Vcs Debichem Team
990653	rdkit-doc: broken symlinks: /usr/share/doc/rdkit/html/_static/{jquery,underscore}.js
1015650	rdkit: ftbfs with LTO (link time optimization) enabled	bookworm, sid, trixie
1037837	rdkit: ftbfs with GCC-13	ftbfs, sid, trixie
seqan3 (2) Homepage: https://www.seqan.de/ Vcs Debian Med Packaging Team
1039561	seqan3's autopkg tests fail to build	sid, trixie
1041371	seqan3 autopkg test fails	sid, trixie
shasta (1) Homepage: https://github.com/chanzuckerberg/shasta Vcs Debian Med Packaging Team
1042196	shasta: FTBFS: Base.hpp:35:18: error: âuint8_tâ was not declared in this scope	ftbfs, sid, trixie
toil (2) Homepage: https://github.com/BD2KGenomics/toil Vcs Debian Med Packaging Team
1031192	toil: FTBFS (The job JobClass is requesting 2.0 cores)	ftbfs
1047298	toil: Fails to build source after successful build	ftbfs, sid, trixie
unifrac-tools (1) Homepage: https://github.com/biocore/unifrac-binaries Vcs Debian Med Packaging Team
1037879	unifrac-tools: ftbfs with GCC-13	ftbfs, sid, trixie
xxsds-dynamic (1) Homepage: https://github.com/xxsds/DYNAMIC Vcs Debian Med Packaging Team
1042340	xxsds-dynamic: FTBFS: make: *** [debian/rules:9: binary] Error 2	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