Summary

Bugs of task bio

Total bugs: 335

Open bugs: 287

Fixed bugs: 48

Links to other tasks

Tasks overview

Biology 287 (2532)

Biology development 136 (1184)

Next generation sequencing 8 (87)

Phylogeny 7 (54)

Cloud 46 (504)

Content management 0 (0)

Covid-19 180 (1800)

Medical data 2 (10)

Dental 2 (12)

Epidemiology 11 (102)

Hospital information systems 1 (9)

Imaging 198 (826)

Imaging development 79 (576)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 27 (192)

Practice 8 (51)

Psychology 12 (121)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 4 (16)

Tools 39 (240)

Typesetting 68 (543)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	1
serious	27	16
important	32	11
normal	85	24
minor	58	6
wishlist	21	6

Summary bugs page of task Biology

Immediately looking into bugs of the dependencies of this task is advised (2532)^*

Open bugs in dependent packages

27 serious, 32 important, 85 normal, 58 minor, 21 wishlist

abyss (1) Homepage: https://github.com/bcgsc/abyss Vcs Debian Med Packaging Team
920282	abyss fails to build on hurd - googletest EXPECT_DEATH
acedb (1) Homepage: http://www.acedb.org/ Vcs Debian Med Packaging Team
1066334	acedb: FTBFS: acein.c:2045:15: error: implicit declaration of function âadd_historyâ [-Werror=implicit-function-declaration]	ftbfs, help, sid, trixie
altree (1) Homepage: https://gitlab.inria.fr/NGS/ALTree Vcs Debian Med Packaging Team
1067631	src:altree: autopkgtest timeouts on armel, armhf and ppc64el
anfo (2) Homepage: https://bioinf.eva.mpg.de/anfo/ Vcs Debian Med Packaging Team
1012893	anfo: ftbfs with GCC-12	bookworm, ftbfs, help, sid, trixie
1061888	anfo: NMU diff for 64-bit time_t transition	patch
ariba (1) Homepage: https://github.com/sanger-pathogens/ariba Vcs Debian Med Packaging Team
1085332	ariba: Python SyntaxWarning
baitfisher (1) Homepage: https://github.com/cmayer/BaitFisher-package Vcs Debian Med Packaging Team
1043995	baitfisher: Fails to build source after successful build	ftbfs, sid, trixie
ball (2) Homepage: http://www.ball-project.org/ Vcs Debian Med Packaging Team
1040385	libball1.5-data: broken symlink: /usr/share/BALL-1.5/BALLView/html -> ../../doc/libball1.5-data/BALLView/html
1060741	ball: Please port from sip4 to sip6	help
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
beads (1) Homepage: http://pappso.inrae.fr/bioinfo/beads Vcs Debian Med Packaging Team
1043686	beads: Fails to build source after successful build	ftbfs, sid, trixie
beagle (2) Homepage: https://faculty.washington.edu/browning/beagle/beagle.html Vcs Debian Med Packaging Team
1032034	beagle: broken package on non arm64/amd64 architectures	wontfix
1043854	beagle: Fails to build source after successful build	ftbfs, sid, trixie
beast2-mcmc (1) Homepage: https://www.beast2.org Vcs Debian Med Packaging Team
1025830	beauti2 fails to start	help
beast-mcmc (2) Homepage: http://beast.bio.ed.ac.uk/ Vcs Debian Med Packaging Team
1025424	beast-mcmc: please enable autopkgtest	help
1043640	beast-mcmc: Fails to build source after successful build	ftbfs, sid, trixie
bioxtasraw (1) Homepage: https://sourceforge.net/p/bioxtasraw/git/ Vcs Debian Science Maintainers
1085363	bioxtasraw: Python SyntaxWarning
bitseq (1) Homepage: https://github.com/BitSeq/BitSeq Vcs Debian Med Packaging Team
1035121	bitseq: please add autopkgtests (to add coverage for python3-numpy)
blasr (1) Homepage: https://github.com/PacificBiosciences/blasr Vcs Debian Med Packaging Team
1067374	blasr: FTBFS: ./obj-x86_64-linux-gnu/../extrautils/StoreQualityByContextFromCmpH5.cpp:40: multiple definition of `main'; toAfg.p/utils_ToAfg.cpp.o:./obj-x86_64-linux-gnu/../utils/ToAfg.cpp:30: first defined here	ftbfs, sid, trixie
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
busco (1) Homepage: https://gitlab.com/ezlab/busco Vcs Debian Med Packaging Team
1085372	busco: Python SyntaxWarning
changeo (1) Homepage: https://changeo.readthedocs.io Vcs Debian Med Packaging Team
1085416	changeo: Python SyntaxWarning
chromhmm (1) Homepage: https://compbio.mit.edu/ChromHMM/ Vcs Debian Med Packaging Team
1032036	chromhmm: broken package on non arm64/amd64 architectures	wontfix
circlator (1) Homepage: https://sanger-pathogens.github.io/circlator/ Vcs Debian Med Packaging Team
1085417	circlator: Python SyntaxWarning
concavity (1) Homepage: https://compbio.cs.princeton.edu/concavity/ Vcs Debian Med Packaging Team
1043837	concavity: Fails to build source after successful build	ftbfs, sid, trixie
coot (4) Homepage: https://github.com/pemsley/coot Vcs Debian Science Maintainers
1072286	coot: add autopkgtest for coot executable	patch
1072618	coot: layla fails to start unless LD_LIBRARY_PATH is specified	fixed-upstream
1080574	Missing Build-Depends on python3-setuptools	sid, trixie
1085529	coot: Python SyntaxWarning
cutesv (1) Homepage: https://github.com/tjiangHIT/cuteSV Vcs Debian Med Packaging Team
1035182	cutesv: please add autopkgtests (to add coverage for python3-numpy)
datamash (3) Homepage: https://savannah.gnu.org/projects/datamash/ Vcs Debian Science Maintainers
982869	datamash FTBFS on !x86 32bit: FAIL: tests/decorate-errors	ftbfs, upstream
1044977	datamash: Fails to build source after successful build	ftbfs, sid, trixie
1057439	datamash: "antimode" returns lowest, instead of least common, value
dawg (1) Homepage: https://github.com/reedacartwright/dawg Vcs Debian Med Packaging Team
903886	dawg: Test suite fails	upstream
discosnp (1) Homepage: http://colibread.inria.fr/discosnp/ Vcs Debian Med Packaging Team
1085542	discosnp: Python SyntaxWarning
ea-utils (1) Homepage: https://expressionanalysis.github.io/ea-utils/ Vcs Debian Med Packaging Team
862118	ea-utils: New upstream version available
emboss (4) Homepage: https://emboss.sourceforge.net Vcs Debian Med Packaging Team
682042	emboss-data: ships bulky taxonomy and gene ontology data
986043	emboss: uses media types that are not registered
1069098	emboss: all executables segfault on s390x	bookworm, bullseye, sid, trixie
1069142	emboss: build time testsuite is failing silently
examl (1) Homepage: https://github.com/stamatak/ExaML Vcs Debian Med Packaging Team
1087184	examl: fails to run with tight cores count
fastaq (1) Homepage: https://github.com/sanger-pathogens/Fastaq Vcs Debian Med Packaging Team
1085573	fastaq: Python SyntaxWarning
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
freebayes (1) Homepage: https://github.com/ekg/freebayes Vcs Debian Med Packaging Team
1067271	freebayes: FTBFS: dh_auto_test: error: cd build && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 MESON_TESTTHREADS=8 meson test -v --timeout-multiplier 100 returned exit code 5	fixed-upstream, ftbfs
gamgi (3) Homepage: http://www.gamgi.org/ Vcs Debichem Team
750139	gamgi: Conflicting return types of function gamgi_engine_iarray_push	upstream
967366	gamgi: depends on deprecated GTK 2
1044244	gamgi: Fails to build source after successful build	ftbfs, sid, trixie
garlic (2) Homepage: http://www.zucic.org/garlic/ Vcs Debichem Team
715937	[Mayhem] Bug report on garlic: garlic crashes with exit status 139
749656	garlic: Conflicting declarations of function BlurMainWindow_ to cause undefined behaviour
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
gbrowse (1) Homepage: http://gmod.org/wiki/GBrowse Vcs Debian Med Packaging Team
1039206	gbrowse: ships sysv-init script without systemd unit
gdpc (2) Homepage: https://web.archive.org/web/20180212152753/http://www.frantz.fi/software/gdpc.php Vcs Debian Med Packaging Team
967379	gdpc: depends on deprecated GTK 2	wontfix
982103	gdpc: autopkgtest failure on s390x
gemma (1) Homepage: https://www.xzlab.org/software.html Vcs Debian Med Packaging Team
1044789	gemma: Fails to build source after successful build	ftbfs, sid, trixie
genomicsdb (1) Homepage: https://www.genomicsdb.org/ Vcs Debian Med Packaging Team
1086565	genomicsdb: FTBFS with fmtlib 10	ftbfs
gentle (1) Homepage: http://gentle.magnusmanske.de Vcs Debian Med Packaging Team
732691	Pressing "alignment or Ctrl+G" only results in a dialog with a cancel button	upstream
ghemical (4) Homepage: http://bioinformatics.org/ghemical/ghemical/ Vcs Debichem Team
967392	ghemical: depends on deprecated GTK 2
967865	ghemical: depends on deprecated libglade2
996006	ghemical: Segmentation fault when starting
1066986	ghemical: FTBFS: /usr/bin/ld: /usr/lib/gcc/x86_64-linux-gnu/13/../../../x86_64-linux-gnu/libghemical.so: undefined reference to `sc::RenderedBallMolecule::RenderedBallMolecule(sc::Ref<sc::KeyVal> const&)'	ftbfs, sid, trixie
ghmm (1) Homepage: https://sourceforge.net/p/ghmm/wiki/Home/ Vcs Debian Med Packaging Team
1085608	ghmm: Python SyntaxWarning
glam2 (1) Homepage: http://acb.qfab.org/acb/glam2/ Vcs Debian Med Packaging Team
1081315	glam2: homepage defunct
grabix (1) Homepage: https://github.com/arq5x/grabix Vcs Debian Med Packaging Team
1045023	grabix: Fails to build source after successful build	ftbfs, sid, trixie
gromacs (2) Homepage: https://www.gromacs.org/ Vcs Debichem Team
644397	Provide runtime detection for CPU SIMD capabilities	upstream
983942	gromacs: ftbfs with -march=x86-64-v3
gwama (1) Homepage: https://www.geenivaramu.ee/en/tools/gwama Vcs Debian Med Packaging Team
1044305	gwama: Fails to build source after successful build	ftbfs, sid, trixie
hilive (1) Homepage: https://gitlab.com/rki_bioinformatics/HiLive2 Vcs Debian Med Packaging Team
1053499	hilive: flaky autopkgtest on several archs: segfault	upstream
hinge (4) Homepage: https://github.com/HingeAssembler/HINGE Vcs Debian Med Packaging Team
958244	Use system libinih-dev
986193	hinge: no autopkgtest available yet	newcomer
1035178	hinge: please add autopkgtests (to add coverage for python3-numpy)
1036500	hinge: please add autopkgtests (to add coverage for python3-matplotlib)
hisat2 (2) Homepage: https://daehwankimlab.github.io/hisat2/ Vcs Debian Med Packaging Team
1048028	hisat2: Fails to build source after successful build	ftbfs, sid, trixie
1076524	hisat2: autopkgtest uses absurd amount of memory on s390x
igdiscover (2) Homepage: http://docs.igdiscover.se/en/stable/ Vcs Debian Med Packaging Team
1032975	igdiscover -- Broken, unusable package due to incomplete code in the binary package	ftbfs
1081341	FTBFS with Python 3.12 AttributeError: module 'configparser' has no attribute 'SafeConfigParser'	ftbfs, sid, trixie
infernal (1) Homepage: http://eddylab.org/infernal/ Vcs Debian Med Packaging Team
1045517	infernal: Fails to build source after successful build	ftbfs, sid, trixie
ipig (1) Homepage: http://sourceforge.net/projects/ipig/ Vcs Debian Med Packaging Team
1045547	ipig: Fails to build source after successful build	ftbfs, sid, trixie
iva (1) Homepage: https://github.com/sanger-pathogens/iva Vcs Debian Med Packaging Team
1085655	iva: Python SyntaxWarning
jellyfish (1) Homepage: https://www.genome.umd.edu/jellyfish.html Vcs Debian Med Packaging Team
1021557	jellyfish: Performance regression in 2.3.0 (orders of magnitude for some inputs)	upstream
jellyfish1 (2) Homepage: https://www.cbcb.umd.edu/software/jellyfish/ Vcs Debian Med Packaging Team
875328	jellyfish1: FTBFS: __sync_val_compare_and_swap_8 undefined	upstream, wontfix
1045535	jellyfish1: Fails to build source after successful build	ftbfs, sid, trixie
jmol (1) Homepage: https://jmol.sourceforge.net/ Vcs Debichem Team
872418	jmol: Weblinks in Help do not work
kallisto (2) Homepage: https://pachterlab.github.io/kallisto Vcs Debian Med Packaging Team
1047324	kallisto: Fails to build source after successful build	ftbfs, sid, trixie
1057131	kallisto: add support for loongarch64 in d/control	patch, pending
khmer (2) Homepage: https://khmer.readthedocs.org Vcs Debian Med Packaging Team
1082721	khmer: FTBFS: failing tests	ftbfs
1085660	khmer: Python SyntaxWarning
kmer (1) Homepage: http://kmer.sourceforge.net Vcs Debian Med Packaging Team
1081273	meryl: Meryl should be packaged separately from new upstream location
kmerresistance (1) Homepage: https://bitbucket.org/genomicepidemiology/kmerresistance Vcs Debian Med Packaging Team
1009159	kmerresistance: Add autopkgtest	newcomer
last-align (1) Homepage: https://gitlab.com/mcfrith/last Vcs Debian Med Packaging Team
1048396	last-align: Fails to build source after successful build	ftbfs, sid, trixie
lefse (1) Homepage: https://github.com/SegataLab/lefse Vcs Debian Med Packaging Team
1085666	lefse: Python SyntaxWarning
libpwiz (1) Homepage: http://proteowizard.sourceforge.net/downloads.shtml Vcs The Debichem Group
1075199	libpwiz: ftbfs with GCC-14	ftbfs, sid, trixie
librg-utils-perl (2) Homepage: https://predictprotein.org/ Vcs Debian Med Packaging Team
1045341	librg-utils-perl: Fails to build source after successful build	ftbfs, sid, trixie
1049488	librg-utils-perl: Fails to build binary packages again after successful build	ftbfs, sid, trixie
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
ltrsift (2) Homepage: https://www.zbh.uni-hamburg.de/en/forschung/gi/software/ltrsift.html Vcs Debian Med Packaging Team
967603	ltrsift: depends on deprecated GTK 2	upstream, wontfix
1048669	ltrsift: Fails to build source after successful build	ftbfs, sid, trixie
lumpy-sv (1) Homepage: https://github.com/arq5x/lumpy-sv Vcs Debian Med Packaging Team
1047978	lumpy-sv: Fails to build source after successful build	ftbfs, sid, trixie
macromoleculebuilder (1) Homepage: https://simtk.org/projects/rnatoolbox Vcs Debichem Team
1086362	macromoleculebuilder: FTBFS: /usr/bin/ld: libMMB.so.4.0: undefined reference to `gzerror'	ftbfs
massxpert (2) Homepage: http://www.msxpertsuite.org/ Vcs The Debichem Group
1045227	massxpert: Fails to build source after successful build	ftbfs, sid, trixie
1084296	massxpert: FTBFS: rror: static assertion failed: No Q_OBJECT in the class passed to QObject::findChildren	ftbfs, sid, trixie
massxpert2 (1) Homepage: http://www.msxpertsuite.org/ Vcs The Debichem Group
1084295	massxpert2: FTBFS: error: static assertion failed: No Q_OBJECT in the class passed to QObject::findChildren	ftbfs
melting (1) Homepage: https://www.ebi.ac.uk/compneur-srv/melting/ Vcs Debian Med Packaging Team
1048833	melting: Fails to build source after successful build	ftbfs, sid, trixie
metaphlan (1) Homepage: https://github.com/biobakery/MetaPhlAn Vcs Debian Med Packaging Team
1035175	metaphlan: please add autopkgtests (to add coverage for python3-numpy)
microbegps (2) Homepage: http://sourceforge.net/projects/microbegps/ Vcs Debian Med Packaging Team
1035188	microbegps: please add autopkgtests (to add coverage for python3-numpy)
1085723	microbegps: Python SyntaxWarning
mirtop (1) Homepage: https://github.com/miRTop/mirtop Vcs Debian Med Packaging Team
1085726	mirtop: Python SyntaxWarning
mlv-smile (1) Homepage: http://www-igm.univ-mlv.fr/~marsan/smile_english.html Vcs Debian Med Packaging Team
1066525	mlv-smile: FTBFS: src/allocateurs.c:45:39: error: implicit declaration of function âgetpagesizeâ [-Werror=implicit-function-declaration]	ftbfs, pending, sid, trixie
mosdepth (1) Homepage: https://github.com/brentp/mosdepth Vcs Debian Med Packaging Team
1075288	mosdepth: ftbfs with GCC-14	ftbfs, sid, trixie
nanook (1) Homepage: https://documentation.tgac.ac.uk/display/NANOOK/NanoOK Vcs Debian Med Packaging Team
1045898	nanook: Fails to build source after successful build	ftbfs, sid, trixie
nanosv (1) Homepage: https://github.com/mroosmalen/nanosv Vcs Debian Med Packaging Team
1085733	nanosv: Python SyntaxWarning
ncbi-blast+ (5) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Vcs Debian Med Packaging Team
956850	ncbi-blast+: Please provide /usr/bin/legacy_blast.pl
984871	ncbi-blast+: Missing headers for shared libraries
1010110	ncbi-blast+: terminate called after throwing an instance of 'ncbi::CIO_Exception'	wontfix
1077777	ncbi-blast+: makeblastdb yields broken DBs on s390x (BE generally?)	upstream
1080479	ncbi-blast+: failure to create blastdb v5 on riscv64
ncbi-igblast (2) Homepage: https://ncbi.github.io/igblast/ Vcs Debian Med Packaging Team
1048966	ncbi-igblast: Fails to build source after successful build	ftbfs, sid, trixie
1068442	igblast: Package igblast does not contain binary for igblast
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
225651	ncbi-tools-x11: want Cn3D++
norsnet (1) Homepage: https://www.rostlab.org/owiki/index.php/Norsnet Vcs Debian Med Packaging Team
1049529	norsnet: Fails to build binary packages again after successful build	ftbfs, sid, trixie
ntcard (1) Homepage: https://github.com/bcgsc/ntCard Vcs Debian Med Packaging Team
1025370	ntcard: ftbfs with nthash 2.3.0	ftbfs, upstream
nxtrim (1) Homepage: https://github.com/sequencing/NxTrim Vcs Debian Med Packaging Team
1045354	nxtrim: Fails to build source after successful build	ftbfs, sid, trixie
obitools (2) Homepage: https://pypi.python.org/pypi/OBITools Vcs Debian Med Packaging Team
1047870	obitools: Fails to build source after successful build	ftbfs, sid, trixie
1085745	obitools: 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
pairtools (3) Homepage: https://github.com/mirnylab/pairtools Vcs Debian Med Packaging Team
1081672	FTBFS with Python 3.13	upstream
1084663	pairtools: removal of Python standard libraries in Python 3.13	upstream
1085765	pairtools: Python SyntaxWarning
parsinsert (1) Homepage: http://sourceforge.net/projects/parsinsert/ Vcs Debian Med Packaging Team
1069488	parsinsert: FTBFS on armhf: make[1]: *** [debian/rules:30: override_dh_auto_test] Error 1	confirmed, ftbfs, sid, trixie
pbsuite (1) Homepage: http://sourceforge.net/projects/pb-jelly Vcs Debian Med Packaging Team
1085772	pbsuite: Python SyntaxWarning
plast (1) Homepage: https://plast.inria.fr/ Vcs Debian Med Packaging Team
1047303	plast: Fails to build source after successful build	ftbfs, sid, trixie
plink2 (1) Homepage: https://www.cog-genomics.org/plink/2.0/ Vcs Debian Med Packaging Team
1048822	plink2: Fails to build source after successful build	ftbfs, sid, trixie
porechop (1) Homepage: https://rrwick.github.io/Porechop Vcs Debian Med Packaging Team
1085786	porechop: Python SyntaxWarning
pplacer (1) Homepage: https://github.com/matsen/pplacer Vcs Debian Med Packaging Team
1074546	FTBFS with OCaml 5.2.0 (Uses C functions without caml_ prefix)	ftbfs
presto (1) Homepage: https://presto.readthedocs.io Vcs Debian Med Packaging Team
1085789	presto: Python SyntaxWarning
prime-phylo (1) Homepage: http://prime.sbc.su.se Vcs Debian Med Packaging Team
1078584	prime-phylo fails to build with mpi-defaults 1.17 on armhf	wontfix
primer3 (1) Homepage: http://primer3.sourceforge.net Vcs Debian Med Packaging Team
1045454	primer3: Fails to build source after successful build	ftbfs, sid, trixie
proalign (1) Homepage: http://loytynojalab.biocenter.helsinki.fi/software/proalign/ Vcs Debian Med Packaging Team
1046067	proalign: Fails to build source after successful build	ftbfs, sid, trixie
provean (1) Homepage: http://provean.jcvi.org Vcs Debian Med Packaging Team
1042769	provean: incompatible with cd-hit >= 4.8.1-4	sid, trixie
psortb (1) Homepage: https://www.psort.org/ Vcs Debian Med Packaging Team
1048520	psortb: Fails to build source after successful build	ftbfs, sid, trixie
pymol (5) Homepage: https://www.pymol.org Vcs Debichem Team
709306	pymol: Crashes when running within xrdp/vnc (no 3D support)
765794	Race condition when running scripts in "stdin" mode
783653	pymol: Segmentation fault immediately after loading pdb
1080880	Missing Build-Depends on python3-setuptools	sid, trixie
1084571	pymol: removal of Python standard libraries in Python 3.13
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-csb (1) Homepage: https://github.com/csb-toolbox/CSB Vcs Debian Med Packaging Team
1085900	python-csb: Python SyntaxWarning
python-dendropy (1) Homepage: https://dendropy.org/ Vcs Debian Med Packaging Team
1083625	python-dendropy: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
python-geneimpacts (1) Homepage: https://github.com/brentp/geneimpacts Vcs Debian Med Packaging Team
1085915	python-geneimpacts: Python SyntaxWarning
python-pybedtools (1) Homepage: https://daler.github.io/pybedtools/ Vcs Debian Med Packaging Team
1081673	FTBFS with Python 3.13	fixed-upstream, patch, upstream
python-pyvcf (2) Homepage: https://github.com/jamescasbon/PyVCF Vcs Debian Med Packaging Team
1079359	SyntaxWarning: invalid escape sequence '\['	newcomer, upstream
1083698	python-pyvcf: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
qcumber (4) Homepage: https://gitlab.com/RKIBioinformaticsPipelines/QCumber Vcs Debian Med Packaging Team
1036374	[INTL:es] Spanish translation of qcumber debconf template	l10n, patch
1036506	qcumber: please add autopkgtests (to add coverage for python3-matplotlib)
1049117	qcumber: Fails to build source after successful build	ftbfs, sid, trixie
1068856	[INTL:sv] Swedish strings for qcumber debconf	l10n, patch
qiime (2) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1076314	qiime hard-codes python 3.11 without depending on it	sid, trixie
1084668	qiime: removal of Python standard libraries in Python 3.13
qutemol (2) Homepage: http://qutemol.sourceforge.net/ Vcs Debichem Team
642084	qutemol: Cannot start the program
939033	qutemol: Uses GifQuantizeBuffer - stops working with newer giflib
rambo-k (2) Homepage: http://rambok.sourceforge.net/ Vcs Debian Med Packaging Team
1047092	rambo-k: Fails to build source after successful build	ftbfs, sid, trixie
1087042	rambo-k: Python SyntaxWarning
rapmap (2) Homepage: https://github.com/COMBINE-lab/RapMap Vcs Debian Med Packaging Team
909766	Use Debian packaged spdlog instead of code copy of old version	help, upstream
976588	rapmap: FTBFS on arm64 (when trying to build arch:all)	bookworm, bullseye, ftbfs, sid, trixie
ray (1) Homepage: https://denovoassembler.sourceforge.net/ Vcs Debian Med Packaging Team
1085491	ray FTCBFS: uses mpicxx	patch
r-bioc-mofa (1) Homepage: https://bioconductor.org/packages/MOFA/ Vcs Debian R Packages Maintainers
1085689	r-bioc-mofa: Python SyntaxWarning
r-cran-sdmtools (1) Homepage: https://cran.r-project.org/package=SDMTools Vcs Debian R Packages Maintainers
1081161	r-cran-sdmtools: removed from CRAN repository
r-cran-spp (1) Homepage: https://cran.r-project.org/package=spp Vcs Debian R Packages Maintainers
1084108	r-cran-spp: removed from CRAN repository
r-cran-tcr (1) Homepage: https://cran.r-project.org/package=tcR Vcs Debian R Packages Maintainers
1081175	r-cran-tcr: removed from CRAN repository
readucks (1) Homepage: https://github.com/artic-network/readucks Vcs Debian Med Packaging Team
1087041	readucks: Python SyntaxWarning
reapr (1) Homepage: https://www.sanger.ac.uk/science/tools/reapr Vcs Debian Med Packaging Team
1045461	reapr: Fails to build source after successful build	ftbfs, sid, trixie
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
roary (2) Homepage: http://sanger-pathogens.github.io/Roary/ Vcs Debian Med Packaging Team
1047005	roary: Fails to build source after successful build	ftbfs, sid, trixie
1049576	roary: Fails to build binary packages again after successful build	ftbfs, sid, trixie
sambamba (1) Homepage: https://github.com/lomereiter/sambamba Vcs Debian Med Packaging Team
1015654	sambamba: ftbfs with LTO (link time optimization) enabled	sid, trixie
samtools (1) Homepage: https://www.htslib.org/ Vcs Debian Med Packaging Team
1087456	samtools: autopkgtest regression with htslib 1.21
scoary (1) Homepage: https://github.com/AdmiralenOla/Scoary Vcs Debian Med Packaging Team
1087074	scoary: Python SyntaxWarning
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
seqprep (1) Homepage: http://seqanswers.com/wiki/SeqPrep Vcs Debian Med Packaging Team
1049489	seqprep: Fails to build binary packages again after successful build	ftbfs, sid, trixie
seqtools (2) Homepage: https://www.sanger.ac.uk/science/tools/seqtools Vcs Debian Med Packaging Team
967743	seqtools: depends on deprecated GTK 2
1047310	seqtools: Fails to build source after successful build	ftbfs, sid, trixie
snap-aligner (1) Homepage: https://snap.cs.berkeley.edu/ Vcs Debian Med Packaging Team
848589	snap-aligner: Build requires 188 GB of memory (fortunately not used, just allocated)
sortmerna (2) Homepage: https://github.com/sortmerna/sortmerna Vcs Debian Med Packaging Team
1072346	sortmerna: please update autopkgtest	newcomer
1087092	sortmerna: Python SyntaxWarning
spades (2) Homepage: https://github.com/ablab/spades Vcs Debian Med Packaging Team
1086015	build for all supported python3
1087093	spades: Python SyntaxWarning
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
srst2 (1) Homepage: https://katholt.github.io/srst2/ Vcs Debian Med Packaging Team
1087097	srst2: Python SyntaxWarning
sumaclust (1) Homepage: http://metabarcoding.org/sumaclust Vcs Debian Med Packaging Team
1075545	sumaclust: ftbfs with GCC-14	ftbfs, sid, trixie, upstream
surankco (1) Homepage: https://sourceforge.net/projects/surankco/ Vcs Debian Med Packaging Team
1048111	surankco: Fails to build source after successful build	ftbfs, sid, trixie
sweed (1) Homepage: https://sco.h-its.org/exelixis/web/software/sweed/ Vcs Debian Med Packaging Team
1080069	sweed: A suspicious integer overflow to buffer overflow in 'SweeD_Input.c'
t-coffee (1) Homepage: https://www.tcoffee.org/Projects/tcoffee/index.html Vcs Debian Med Packaging Team
956848	t-coffee: should use "example" blastpgp.pl
tnseq-transit (1) Homepage: http://saclab.tamu.edu/essentiality/transit/ Vcs Debian Med Packaging Team
1083799	tnseq-transit: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
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
1087116	toil: Python SyntaxWarning
tombo (3) Homepage: https://github.com/nanoporetech/tombo Vcs Debian Med Packaging Team
1049071	tombo: Fails to build source after successful build	ftbfs, sid, trixie
1083801	tombo: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
1087117	tombo: Python SyntaxWarning
treeviewx (1) Homepage: https://github.com/rdmpage/treeviewx Vcs Debian Med Packaging Team
846481	src:treeviewx: Please remove statically linked code copy of libncl
trinityrnaseq (1) Homepage: https://github.com/trinityrnaseq/trinityrnaseq Vcs Debian Med Packaging Team
981874	trinityrnaseq: flaky autopkgtest	bookworm, bullseye, sid, trixie
twopaco (1) Homepage: https://github.com/medvedevgroup/TwoPaCo Vcs Debian Med Packaging Team
1047488	twopaco: Fails to build source after successful build	ftbfs, sid, trixie
umap-learn (3) Homepage: https://github.com/lmcinnes/umap Vcs Debian Med Packaging Team
980509	umap-learn: Binary package name should be python3-umap-learn	pending
1058489	umap-learn: please (temporarily) drop python3-numba dependencies
1071816	umap-learn: FTBFS: E TypeError: exceptions must be derived from Warning, not <class 'NoneType'>	ftbfs
umis (1) Homepage: https://github.com/vals/umis Vcs Debian Med Packaging Team
1087155	umis: Python SyntaxWarning
uncalled (1) Homepage: https://github.com/skovaka/UNCALLED Vcs Debian Med Packaging Team
1087156	uncalled: Python SyntaxWarning
unicycler (2) Homepage: https://github.com/rrwick/Unicycler Vcs Debian Med Packaging Team
1048635	unicycler: Fails to build source after successful build	ftbfs, sid, trixie
1087157	unicycler: Python SyntaxWarning
vg (6) Homepage: https://github.com/vgteam/vg#vg Vcs Debian Med Packaging Team
976511	vg: FTBFS on arm64: configure: error: Could not find a version of the library!	bookworm, bullseye, ftbfs, sid, trixie
987184	vg -- excessive variants built, and not tested
1013061	vg: ftbfs with GCC-12	bookworm, ftbfs, sid, trixie
1015699	vg: ftbfs with LTO (link time optimization) enabled	sid, trixie
1043312	vg: Replace transitional bsdmainutils	pending
1084554	vg: removal of Python standard libraries in Python 3.13
yanosim (1) Homepage: https://github.com/bartongroup/yanosim Vcs Debian Med Packaging Team
1087194	yanosim: Python SyntaxWarning

Open bugs in suggested packages

1 grave, 16 serious, 11 important, 24 normal, 6 minor, 6 wishlist

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
catfishq (1) Homepage: https://github.com/philres/catfishq Vcs Steffen Moeller
1085412	catfishq: Python SyntaxWarning
debian-science (3) Homepage: https://wiki.debian.org/DebianScience/ Vcs Debian Science Team
1030327	science-numericalcomputation: please stop recommending python3-theano as it is being removed
1032638	please drop transitional package science-electronics from src:debian-science
1055339	debian-science: please replace recommendation of src:dolfin by src:fenics-dolfinx
getdata (1) Homepage: http://debian-med.alioth.debian.org Vcs Debian Med Packaging Team
1081508	getdata: homepage defunct
hdf5 (23) 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
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
htseq (1) Homepage: https://www-huber.embl.de/users/anders/HTSeq/doc/overview.html Vcs Debian Med Packaging Team
1085638	htseq: Python SyntaxWarning
hts-nim-tools (1) Homepage: https://github.com/brentp/hts-nim-tools Vcs Debian Med Packaging Team
1075071	hts-nim-tools: ftbfs with GCC-14	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
maude (1) Homepage: http://maude.cs.uiuc.edu Vcs Debian Med Packaging Team
1067957	FTBFS: error: call of overloaded â__gmp_expr(__time64_t&)â is ambiguous	ftbfs, sid, trixie
pychopper (1) Homepage: https://github.com/epi2me-labs/pychopper Vcs Debian Med Packaging Team
1082368	FTBFS: TestIntegration.testIntegration: AssertionError: 1 != 0	confirmed, ftbfs
pyrle (1) Homepage: https://github.com/pyranges/pyrle Vcs Debian Python Team
1047039	pyrle: Fails to build source after successful build	ftbfs, 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-cgecore (2) Homepage: https://bitbucket.org/genomicepidemiology/cge_core_module/ Vcs Debian Med Packaging Team
1084632	python-cgecore: removal of Python standard libraries in Python 3.13
1085895	python-cgecore: Python SyntaxWarning
python-loompy (3) 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
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-pyflow (2) Homepage: https://illumina.github.io/pyflow/ Vcs Debian Med Packaging Team
1080766	Missing Build-Depends on python3-setuptools	sid, trixie, wontfix
1081243	python3-pyflow: helloWorld and other examples not runnable, possibly since python2 dropped	upstream, wontfix
python-pysam (1) Homepage: https://pysam.readthedocs.org/en/latest Vcs Debian Med Packaging Team
1087457	python3-pysam: autopkgtest regression with htslib 1.21	upstream
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
q2cli (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076080	q2cli: FTBFS in sid (python3.12)	ftbfs
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
r-bioc-org.hs.eg.db (1) Homepage: https://bioconductor.org/packages/data/experiment/org.Hs.eg.db/ Vcs Debian R Packages Maintainers
1083247	r-bioc-org.hs.eg.db: homepage defunct, standardize
relion-cuda (2) Homepage: https://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page Vcs Debian Med Packaging Team
1036681	relion-cuda: FTBFS with CUDA 12: nvcc fatal : Value 'sm_35' is not defined for option 'gpu-architecture'	ftbfs, sid, trixie
1040128	relion-cuda: FTBFS with cub 2.0.1: error: function "cub::Debug" has already been defined	ftbfs, sid, trixie
resfinder-db (1) Homepage: https://bitbucket.org/genomicepidemiology/resfinder Vcs Debian Med Packaging Team
1049268	resfinder-db: Fails to build source after successful build	ftbfs, sid, trixie
sift (3) Homepage: http://sift.bii.a-star.edu.sg/ Vcs Debian Med Packaging Team
986200	sift: Please provide autopkgtest	newcomer
987606	sift: does not autobuild on buildds
1066998	sift: FTBFS with -Werror=implicit-function-declaration	ftbfs, sid, trixie

Done bugs

arden (3) Homepage: http://sourceforge.net/projects/arden/ Vcs Debian Med Packaging Team
1035113	arden: please add autopkgtests (to add coverage for python3-numpy)
1036488	arden: please add autopkgtests (to add coverage for python3-matplotlib)
1085326	arden: Python SyntaxWarning
ariba (1) Homepage: https://github.com/sanger-pathogens/ariba Vcs Debian Med Packaging Team
1085587	ariba FTBFS with Python 3.13
cif-tools (2) Homepage: https://github.com/PDB-REDO/cif-tools Vcs Debian Med Packaging Team
1043897	cif-tools: Fails to build source after successful build	ftbfs, sid, trixie
1085967	cif-tools:FTBFS:error: âvoid templateParser::produce_datablock(const std::string&)â	ftbfs, sid, trixie
cutesv (1) Homepage: https://github.com/tjiangHIT/cuteSV Vcs Debian Med Packaging Team
1082586	src:cutesv: fails to migrate to testing for too long	sid, trixie
dssp (1) Homepage: https://github.com/PDB-REDO/dssp Vcs Debian Med Packaging Team
1045047	dssp: Fails to build source after successful build	ftbfs, sid, trixie
examl (2) Homepage: https://github.com/stamatak/ExaML Vcs Debian Med Packaging Team
1084904	examl: Please rebuild against mpich rather than openmpi, or default mpi
1086909	examl: depends on openmpi on 32-bit architectures
fasta3 (1) Homepage: https://fasta.bioch.virginia.edu Vcs Debian Med Packaging Team
1044536	fasta3: Fails to build source after successful build	ftbfs, sid, trixie
fastaq (1) Homepage: https://github.com/sanger-pathogens/Fastaq Vcs Debian Med Packaging Team
1083383	fastaq: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
ffindex (2) Homepage: https://github.com/ahcm/ffindex Vcs Debian Med Packaging Team
1084923	ffindex: Drop openmpi for 32-bit systems
1086910	ffindex: depends on openmpi on 32-bit architectures
garli (2) Homepage: https://github.com/Ashod/garli Vcs Debian Med Packaging Team
1044308	garli: Fails to build source after successful build	ftbfs, sid, trixie
1084928	garli: Please move from openmpi to mpich for 32-bit systems
genomicsdb (1) Homepage: https://www.genomicsdb.org/ Vcs Debian Med Packaging Team
1079485	libgenomicsdb1: Built with default MPI, but depends on openmpi-bin
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
gromacs (1) Homepage: https://www.gromacs.org/ Vcs Debichem Team
1086272	gromacs: FTBFS with OpenMPI 5 on systems with less than 4 CPUs	ftbfs
htslib (3) Homepage: https://github.com/samtools/htslib Vcs Debian Med Packaging Team
1086364	metabat: FTBFS: Package 'bzip2', required by 'htslib', not found	ftbfs, sid, trixie
1086367	libhts-dev: Missing dependency on libbz2-dev	ftbfs
1086368	libhts-dev: Missing dependency on libbz2-dev	ftbfs
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
mirtop (1) Homepage: https://github.com/miRTop/mirtop Vcs Debian Med Packaging Team
1084347	python-seqcluster: FTBFS: ModuleNotFoundError: No module named 'six'	ftbfs, sid, trixie
murasaki (1) Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/ Vcs Debian Med Packaging Team
1086908	murasaki: depends on openmpi on 32-bit architectures	sid, trixie
optimir (1) Homepage: https://github.com/FlorianThibord/OptimiR Vcs Debian Med Packaging Team
1085756	optimir: Python SyntaxWarning
parsinsert (1) Homepage: http://sourceforge.net/projects/parsinsert/ Vcs Debian Med Packaging Team
964082	parsinsert fails it's tests when built with -O2	bookworm, bullseye, sid, trixie
phyml (1) Homepage: http://www.atgc-montpellier.fr/phyml Vcs Debian Med Packaging Team
1086912	phyml: depends on openmpi on 32-bit architectures	sid, trixie
poretools (1) Homepage: https://poretools.readthedocs.org Vcs Debian Med Packaging Team
1083552	poretools: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
prime-phylo (1) Homepage: http://prime.sbc.su.se Vcs Debian Med Packaging Team
1086370	prime-phylo: FTBFS: fatal error: mpicxx.h: No such file or directory	ftbfs
python-pyfaidx (1) Homepage: https://github.com/mdshw5/pyfaidx Vcs Debian Med Packaging Team
1083691	python-pyfaidx: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
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-treetime (1) Homepage: https://github.com/neherlab/treetime Vcs Debian Med Packaging Team
1086965	python-treetime: Python SyntaxWarning
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-megadepth (1) Homepage: https://bioconductor.org/packages/megadepth/ Vcs Debian R Packages Maintainers
1033853	r-bioc-megadepth: autopkgtest regression: different output	bookworm-ignore
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
relion (1) Homepage: https://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page Vcs Debian Med Packaging Team
1086914	relion: depends on openmpi on 32-bit architectures	sid, trixie
resfinder (1) Homepage: https://bitbucket.org/genomicepidemiology/resfinder Vcs Debian Med Packaging Team
1078562	resfinder: Please package new v4.6.0 and migrate away from pdm-pep517	patch
scoary (1) Homepage: https://github.com/AdmiralenOla/Scoary Vcs Debian Med Packaging Team
1083762	scoary: (build-)depends on deprecated module python3-pkg-resources	sid, trixie
seqan-needle (1) Homepage: https://github.com/seqan/needle Vcs Debian Med Packaging Team
1086625	seqan-needle: FTBFS: 2 - test/api/insert_delete_test (Failed)	ftbfs
spades (1) Homepage: https://github.com/ablab/spades Vcs Debian Med Packaging Team
976523	spades: FTBFS: jemalloc_internal.h:292:6: error: #error "No LG_QUANTUM definition for architecture; specify via CPPFLAGS"	bookworm, bullseye, ftbfs, 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
tortoize (1) Homepage: https://github.com/PDB-REDO/tortoize Vcs Debian Med Packaging Team
1045986	tortoize: Fails to build source after successful build	ftbfs, sid, trixie
tree-puzzle (4) Homepage: http://www.tree-puzzle.de Vcs Debian Med Packaging Team
1049170	tree-puzzle: Fails to build source after successful build	ftbfs, sid, trixie
1082806	tree-puzzle: please make the build reproducible	patch
1086203	src:tree-puzzle: fails to migrate to testing for too long	sid, trixie
1086907	tree-puzzle: depends on openmpi on 32-bit architectures
vg (1) Homepage: https://github.com/vgteam/vg#vg Vcs Debian Med Packaging Team
1081347	vg: intent to file removal bug	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