Summary

Bugs of task bio

Total bugs: 314

Open bugs: 258

Fixed bugs: 56

Links to other tasks

Tasks overview

Biology 258 (2699)

Biology development 126 (1245)

Next generation sequencing 8 (150)

Phylogeny 9 (72)

Cloud 50 (714)

Content management 0 (0)

Covid-19 150 (1631)

Medical data 1 (1)

Dental 1 (3)

Epidemiology 13 (224)

Hospital information systems 1 (9)

Imaging 207 (1075)

Imaging development 82 (821)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 29 (273)

Practice 6 (33)

Psychology 6 (46)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 3 (7)

Tools 38 (243)

Typesetting 66 (529)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	1
serious	49	17
important	27	12
normal	35	18
minor	70	5
wishlist	18	6

Summary bugs page of task Biology

Immediately looking into bugs of the dependencies of this task is advised (2699)^*

Open bugs in dependent packages

49 serious, 27 important, 35 normal, 70 minor, 18 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
ampliconnoise (1) Homepage: https://github.com/lanzen/ampliconnoise Vcs Debian Med Packaging Team
1077153	ampliconnoise FTBFS with gcc 14	ftbfs
anfo (2) Homepage: https://bioinf.eva.mpg.de/anfo/ Vcs Debian Med Packaging Team
1012893	anfo: ftbfs with GCC-12	help, bookworm, sid, ftbfs, trixie
1061888	anfo: NMU diff for 64-bit time_t transition	patch
arden (2) 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)
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
bali-phy (1) Homepage: http://www.bali-phy.org Vcs Debian Med Packaging Team
1074835	bali-phy: ftbfs with GCC-14	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'	upstream, ftbfs
bcftools (1) Homepage: https://samtools.github.io/bcftools/ Vcs Debian Med Packaging Team
870060	bcftools FTBFS on big endian: 107 tests failed	fixed-upstream, 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
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
beast2-mcmc (1) Homepage: https://www.beast2.org Vcs Debian Med Packaging Team
1025830	beauti2 fails to start	help
bioxtasraw (1) Homepage: https://sourceforge.net/p/bioxtasraw/git/ Vcs Debian Science Maintainers
1058469	bioxtasraw: please (temporarily) drop python3-numba dependencies
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	pending, patch
1058455	btllib: add build support for loongarch64	patch
chromhmm (1) Homepage: https://compbio.mit.edu/ChromHMM/ Vcs Debian Med Packaging Team
1032036	chromhmm: broken package on non arm64/amd64 architectures	wontfix
cif-tools (1) 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
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
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
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
dwgsim (3) Homepage: https://github.com/nh13/DWGSIM/ Vcs Debian Med Packaging Team
1044706	dwgsim: Fails to build source after successful build	ftbfs, sid, trixie
1049717	dwgsim: Fails to build binary packages again after successful build	ftbfs, sid, trixie
1074926	dwgsim: ftbfs with GCC-14	ftbfs, sid, trixie
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
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
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
freecontact (2) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1049797	freecontact: Fails to build binary packages again after successful build	ftbfs, sid, trixie
1069552	freecontact: FTBFS on armel: make[1]: *** [Makefile:469: all-recursive] Error 1	ftbfs, sid, trixie
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
garli (1) Homepage: https://github.com/Ashod/garli Vcs Debian Med Packaging Team
1044308	garli: 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
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&)'	sid, ftbfs, trixie
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 (1) 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
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
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	wontfix, upstream
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
kissplice (2) Homepage: https://kissplice.prabi.fr/ Vcs Debian Med Packaging Team
1073482	kissplice: FTBFS: make[3]: *** [doc/CMakeFiles/doc.dir/build.make:78: doc/user_guide.pdf] Error 1	ftbfs, sid, trixie
1074658	kissplice: FTBFS: dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j8 test ARGS\+=--verbose ARGS\+=-j8 returned exit code 2	ftbfs, sid, trixie
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
libncl (2) Homepage: https://github.com/mtholder/ncl Vcs Debian Med Packaging Team
1015505	libncl: ftbfs with LTO (link time optimization) enabled	sid, trixie
1075191	libncl: ftbfs with GCC-14	ftbfs, sid, trixie
libpwiz (1) Homepage: http://proteowizard.sourceforge.net/downloads.shtml Vcs The Debichem Group
1075199	libpwiz: ftbfs with GCC-14	trixie, sid, ftbfs
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	libvcflib: replace to-be-removed markdown build-dependency	pending
1074044	libvcflib: Improve support for loongarch64	pending, patch
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
macsyfinder (1) Homepage: https://github.com/gem-pasteur/macsyfinder Vcs Debian Med Packaging Team
1048586	macsyfinder: Fails to build source after successful build	ftbfs, sid, trixie
maq (1) Homepage: http://maq.sourceforge.net/ Vcs Debian Med Packaging Team
1075253	maq: ftbfs with GCC-14	sid, ftbfs, trixie
maqview (1) Homepage: https://maq.sourceforge.net/maqview.shtml Vcs Debian-Med Packaging Team
1075254	maqview: ftbfs with GCC-14	trixie, sid, ftbfs
massxpert (1) Homepage: http://www.msxpertsuite.org/ Vcs The Debichem Group
1045227	massxpert: Fails to build source after successful build	ftbfs, sid, trixie
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 (1) Homepage: http://sourceforge.net/projects/microbegps/ Vcs Debian Med Packaging Team
1035188	microbegps: please add autopkgtests (to add coverage for python3-numpy)
mindthegap (1) Homepage: https://github.com/GATB/MindTheGap Vcs Debian Med Packaging Team
1075273	mindthegap: ftbfs with GCC-14	sid, ftbfs, trixie
minimac4 (1) Homepage: https://genome.sph.umich.edu/wiki/Minimac4 Vcs Debian Med Packaging Team
1075276	minimac4: ftbfs with GCC-14	sid, ftbfs, trixie
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]	pending, trixie, ftbfs, sid
mosdepth (1) Homepage: https://github.com/brentp/mosdepth Vcs Debian Med Packaging Team
1075288	mosdepth: ftbfs with GCC-14	trixie, ftbfs, sid
mptp (1) Homepage: https://github.com/Pas-Kapli/mptp Vcs Debian Med Packaging Team
1048555	mptp: Fails to build source after successful build	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
ncbi-acc-download (1) Homepage: https://github.com/kblin/ncbi-acc-download Vcs Debian Med Packaging Team
1073450	ncbi-acc-download: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.12 3.11" returned exit code 13	ftbfs, sid, trixie
ncbi-blast+ (3) 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
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-seg (1) Homepage: ftp://ftp.ncbi.nih.gov/pub/seg/seg/ Vcs Debian Med Packaging Team
1066563	ncbi-seg: FTBFS: genwin.c:93:8: error: implicit declaration of function âblastdbâ [-Werror=implicit-function-declaration]	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++
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 (2) Homepage: https://github.com/bcgsc/ntCard Vcs Debian Med Packaging Team
1025370	ntcard: ftbfs with nthash 2.3.0	ftbfs, upstream
1075324	ntcard: ftbfs with GCC-14	trixie, sid, ftbfs
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 (1) Homepage: https://pypi.python.org/pypi/OBITools Vcs Debian Med Packaging Team
1047870	obitools: Fails to build source after successful build	ftbfs, sid, trixie
openms (1) Homepage: http://www.openms.de Vcs The Debichem Group
1068052	openms: FTBFS on armel,armhf (error: âQOpenGLFunctions_2_0â does not name a type)	ftbfs
parasail (1) Homepage: https://github.com/jeffdaily/parasail Vcs Debian Med Packaging Team
1075361	parasail: ftbfs with GCC-14	sid, ftbfs, trixie
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	ftbfs, confirmed, trixie, sid
phast (1) Homepage: http://compgen.cshl.edu/phast/ Vcs Debian Med Packaging Team
1075383	phast: ftbfs with GCC-14	sid, ftbfs, trixie
pigx-rnaseq (1) Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Vcs Debian Med Packaging Team
1071333	pigx-rnaseq: FTBFS: ERROR: could not find report for SALMON at transcript level	trixie, ftbfs, sid
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
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
prime-phylo (1) Homepage: http://prime.sbc.su.se Vcs Debian Med Packaging Team
1075397	prime-phylo: ftbfs with GCC-14	sid, ftbfs, trixie
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	trixie, sid
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 (3) 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
python-cogent (1) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1058479	python-cogent: please (temporarily) drop python3-numba dependencies	wontfix
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 (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1076314	qiime hard-codes python 3.11 without depending on it	sid, trixie
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
r-cran-metamix (2) Homepage: https://cran.r-project.org/package=metaMix Vcs Debian R Packages Maintainers
1069509	r-cran-metamix: FTBFS on armhf: tests fail	trixie, moreinfo, ftbfs, sid
1076615	r-cran-metamix: autopkgtest regression with rmpi 0.7-2-2 (armel,armhf,i386)
rambo-k (1) Homepage: http://rambok.sourceforge.net/ Vcs Debian Med Packaging Team
1047092	rambo-k: Fails to build source after successful build	ftbfs, sid, trixie
rapmap (3) 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)	trixie, bullseye, ftbfs, sid, bookworm
1075435	rapmap: ftbfs with GCC-14	ftbfs, sid, trixie
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
salmon (1) Homepage: https://github.com/COMBINE-lab/salmon Vcs Debian Med Packaging Team
1075486	salmon: ftbfs with GCC-14	trixie, sid, ftbfs
sambamba (2) Homepage: https://github.com/lomereiter/sambamba Vcs Debian Med Packaging Team
1015654	sambamba: ftbfs with LTO (link time optimization) enabled	sid, trixie
1076921	sambamba: FTBFS: ldc2: Unknown command line argument '-frelease'. Try: 'ldc2 --help'	ftbfs
savvy (1) Homepage: https://github.com/statgen/savvy Vcs Debian Med Packaging Team
1075487	savvy: ftbfs with GCC-14	ftbfs, sid, trixie
seqan-needle (1) Homepage: https://github.com/seqan/needle Vcs Debian Med Packaging Team
1075502	seqan-needle: ftbfs with GCC-14	ftbfs, sid, trixie
seqan-raptor (1) Homepage: https://github.com/seqan/raptor Vcs Debian Med Packaging Team
1075503	seqan-raptor: ftbfs with GCC-14	trixie, ftbfs, sid
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)
soapdenovo2 (1) Homepage: http://soap.genomics.org.cn/soapdenovo.html Vcs Debian Med Packaging Team
1075524	soapdenovo2: ftbfs with GCC-14	trixie, sid, ftbfs
sortmerna (1) Homepage: https://github.com/sortmerna/sortmerna Vcs Debian Med Packaging Team
1072346	sortmerna: please update autopkgtest	newcomer
sprai (1) Homepage: https://web.archive.org/web/20180316202959/http://zombie.cb.k.u-tokyo.ac.jp/sprai/ Vcs Debian Med Packaging Team
1047125	sprai: Fails to build source after successful build	ftbfs, sid, trixie
sumaclust (1) Homepage: http://metabarcoding.org/sumaclust Vcs Debian Med Packaging Team
1075545	sumaclust: ftbfs with GCC-14	ftbfs, sid, trixie
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
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
thesias (1) Homepage: https://github.com/daissi/thesias Vcs Debian Med Packaging Team
1075571	thesias: ftbfs with GCC-14	sid, ftbfs, trixie
toil (1) Homepage: https://github.com/BD2KGenomics/toil Vcs Debian Med Packaging Team
1073358	toil: FTBFS: ModuleNotFoundError: No module named 'boto'	ftbfs, sid, trixie
tombo (1) Homepage: https://github.com/nanoporetech/tombo Vcs Debian Med Packaging Team
1049071	tombo: Fails to build source after successful build	ftbfs, sid, trixie
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 (2) Homepage: http://www.tree-puzzle.de Vcs Debian Med Packaging Team
1049170	tree-puzzle: Fails to build source after successful build	ftbfs, sid, trixie
1075584	tree-puzzle: ftbfs with GCC-14	ftbfs, sid, trixie
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, sid, trixie, bullseye
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
unicycler (1) Homepage: https://github.com/rrwick/Unicycler Vcs Debian Med Packaging Team
1048635	unicycler: Fails to build source after successful build	ftbfs, sid, trixie
velvet (1) Homepage: https://github.com/dzerbino/velvet Vcs Debian Med Packaging Team
1075617	velvet: ftbfs with GCC-14	sid, ftbfs, trixie
vg (5) 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!	bullseye, trixie, ftbfs, bookworm, sid
987184	vg -- excessive variants built, and not tested
1013061	vg: ftbfs with GCC-12	bookworm, sid, trixie, ftbfs
1015699	vg: ftbfs with LTO (link time optimization) enabled	sid, trixie
1043312	vg: Replace transitional bsdmainutils
wise (1) Homepage: https://www.ebi.ac.uk/~birney/wise2/ Vcs Debian Med Packaging Team
1075638	wise: ftbfs with GCC-14	trixie, sid, ftbfs

Open bugs in suggested packages

1 grave, 17 serious, 12 important, 18 normal, 5 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
cluster3 (1) Homepage: http://bonsai.hgc.jp/~mdehoon/software/cluster/ Vcs Debian Med Packaging Team
1076870	cluster3: FTBFS: configure: error: changes in the environment can compromise the build	ftbfs
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
epigrass (4) Homepage: https://github.com/fccoelho/epigrass Vcs Debian Med Packaging Team
995966	epigrass: epirunner and epidash fail to run due to missing dash modules	pending
998265	epigrass: autopkgtest regression: The 'panel' distribution was not found
1057989	epigrass: runtime dependency on cython	sid, trixie
1058470	epigrass: please (temporarily) drop python3-numba dependencies
hdf5 (24) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
638753	libhdf5-serial-1.8.7: threadsafe memory leaks	moreinfo
715959	[Mayhem] Bug report on hdf5-tools: gif2h5 crashes with exit status 139
716008	[Mayhem] Bug report on hdf5-tools: h5copy crashes with exit status 139
716010	[Mayhem] Bug report on hdf5-tools: h5diff crashes with exit status 139
716011	[Mayhem] Bug report on hdf5-tools: h5dump crashes with exit status 139
716012	[Mayhem] Bug report on hdf5-tools: h5import crashes with exit status 139
740613	libhdf5-7: Please include support for compression with libaec
748587	Duplicate and conflicting definitions of variable FILENAME	upstream
839784	libhdf5-dev: pkg-config file references ONLY the C library
915807	hdf5: CVE-2017-17507	security, upstream
958174	hdf5: please add the hdf5plugins
968559	libhdf5-openmpi-dev: hdf5-mpi.pc alternative sometimes goes missing	moreinfo
1023446	libhdf5-openmpi-dev: h5pcc configured as static build
1023820	hdf5: Dependencies not tight enough
1031726	hdf5: CVE-2022-26061 CVE-2022-25972 CVE-2022-25942	upstream, security
1034807	hdf5: CVE-2018-11205	upstream, security
1034838	hdf5: CVE-2019-8396 CVE-2019-8398	security
1040862	hdf5: S3 VFD pulls in networking dependencies (libcurl), please package it as a VFD plugin
1052250	pkg-config file incorrect for static linking
1063856	hdf5: new upstream release
1067758	Please provide a nojava build profile
1067789	hdf5: diff for NMU version 1.10.10+repack-3.2	patch, pending
1067950	hdf5: diff for NMU version 1.10.10+repack-3.3	patch, pending
1075063	hdf5: ftbfs with GCC-14	trixie, ftbfs, sid
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	trixie, ftbfs, sid
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-loompy (1) Homepage: https://github.com/linnarsson-lab/loompy Vcs Debian Med Packaging Team
1058482	python-loompy: please (temporarily) drop python3-numba dependencies
python-ncls (1) Homepage: https://github.com/biocore-ntnu/ncls Vcs Debian Python Team
1046648	python-ncls: Fails to build source after successful build	ftbfs, sid, trixie
python-seqcluster (2) Homepage: https://github.com/lpantano/seqcluster Vcs Debian Med Packaging Team
1035277	python-seqcluster: please add autopkgtests (to add coverage for python3-numpy)
1076912	python-seqcluster: FTBFS: AttributeError: module 'scipy.stats' has no attribute 'binom_test'	ftbfs
q2-alignment (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076318	q2-alignment hard-codes python 3.11 without depending on it	sid, trixie
q2-demux (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076315	q2-demux hard-codes python 3.11 without depending on it	sid, trixie
q2-feature-classifier (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1071882	q2-feature-classifier: FTBFS: unsatisfiable build-dependencies	ftbfs
q2-phylogeny (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076317	q2-phylogeny hard-codes python 3.11 without depending on it	sid, trixie
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076914	q2-quality-control: FTBFS: rm: cannot remove '/<<PKGBUILDDIR>>/debian//usr/lib/python3/dist-packages/run_decontam.R': No such file or directory	ftbfs
q2-types (2) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1065333	q2-types: test data heavily outweighs actual code
1076316	q2-types hard-codes python 3.11 without depending on it	sid, trixie
q2cli (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1076080	q2cli: FTBFS in sid (python3.12)
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'	sid, ftbfs, 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

alter-sequence-alignment (1) Homepage: http://sing.ei.uvigo.es/ALTER/ Vcs Debian Med Packaging Team
1073090	alter-sequence-alignment: replace to-be-removed markdown build-dependency
bamtools (1) Homepage: https://github.com/pezmaster31/bamtools/wiki Vcs Debian Med Packaging Team
1075990	bamtools corrupts output data on bigendian architectures	patch, upstream
bioxtasraw (1) Homepage: https://sourceforge.net/p/bioxtasraw/git/ Vcs Debian Science Maintainers
1069737	bioxtasraw: please drop dependency on obsolete python3-mock
daligner (1) Homepage: https://dazzlerblog.wordpress.com Vcs Debian Med Packaging Team
1074900	daligner: ftbfs with GCC-14	sid, trixie
dialign (1) Homepage: https://dialign.gobics.de/ Vcs Debian Med Packaging Team
1074909	dialign: ftbfs with GCC-14	trixie, sid
ecopcr (1) Homepage: https://git.metabarcoding.org/obitools/ecopcr/wikis/home Vcs Debian Med Packaging Team
1074930	ecopcr: ftbfs with GCC-14	trixie, sid
emperor (1) Homepage: https://biocore.github.io/emperor/ Vcs Debian Med Packaging Team
1074593	emperor: Move from jsdoc-toolkit to node-jsdoc2
epcr (1) Homepage: https://www.ncbi.nlm.nih.gov/tools/epcr/ Vcs Debian Med Packaging Team
1076879	epcr: FTBFS: re-PCR_main.cpp:30:10: fatal error: epcr/defaults.h: No such file or directory	ftbfs
fastdnaml (1) Homepage: ftp://ftp.bio.indiana.edu/molbio/evolve/fastdnaml/fastDNAml.html Vcs Debian Med Packaging Team
1074947	fastdnaml: ftbfs with GCC-14	trixie, sid
gffread (3) Homepage: https://ccb.jhu.edu/software/stringtie/gff.shtml Vcs Debian Med Packaging Team
1033703	gffread: autopkgtest regression: test dependency not in testing	bookworm-ignore
1073921	gffread: Revert the 0.12.7-4 tests workaround
1076731	src:gffread: fails to migrate to testing for too long: autopkgtest regression on s390x	sid, trixie
ghmm (2) Homepage: https://sourceforge.net/p/ghmm/wiki/Home/ Vcs Debian Med Packaging Team
1073355	ghmm: FTBFS: xmlwriter.c:1105:5: error: implicit declaration of function âxmlSubstituteEntitiesDefaultâ [-Werror=implicit-function-declaration]	ftbfs, sid, trixie
1074994	ghmm: ftbfs with GCC-14	sid, trixie
graphlan (2) Homepage: https://huttenhower.sph.harvard.edu/graphlan Vcs Debian Med Packaging Team
1072628	graphlan: autopkgtest regression in testing	sid, trixie
1075906	graphlan: fails tests with matplotlib 3.8
hdf5 (1) Homepage: http://hdfgroup.org/HDF5/ Vcs Gilles Filippini
1070861	hdf5: CVE-2024-33877 CVE-2024-33876 CVE-2024-33875 CVE-2024-33874 CVE-2024-33873 CVE-2024-32624 CVE-2024-32623 CVE-2024-32622 CVE-2024-32621 CVE-2024-32620 CVE-2024-32619 CVE-2024-32618 CVE-2024-32617 CVE-2024-32616 CVE-2024-32615 CVE-2024-32614 CVE-2024-32613 CVE-2024-32612 CVE-2024-32611 CVE-2024-32610 CVE-2024-32609 CVE-2024-32608 CVE-2024-32607 CVE-2024-32606 CVE-2024-32605 CVE-2024-29166 CVE-2024-29165 CVE-2024-29164 CVE-2024-29163 CVE-2024-29162 CVE-2024-29161 CVE-2024-29160 CVE-2024-29159 CVE-2024-29158 CVE-2024-29157	security, upstream
hisat2 (1) Homepage: https://daehwankimlab.github.io/hisat2/ Vcs Debian Med Packaging Team
1074739	hisat2: FTBFS: make[1]: *** [debian/rules:39: override_dh_auto_build] Error 1	trixie, ftbfs, sid, experimental
lamassemble (1) Homepage: https://gitlab.com/mcfrith/lamassemble Vcs Debian Med Packaging Team
1074521	lamassemble: autopkgtest failure with Python 3.12
libssw (2) Homepage: https://github.com/mengyao/Complete-Striped-Smith-Waterman-Library Vcs Debian Med Packaging Team
1015525	libssw: ftbfs with LTO (link time optimization) enabled	experimental, sid, trixie
1075207	libssw: ftbfs with GCC-14	sid, trixie
lucy (1) Homepage: https://lucy.sourceforge.net Vcs Debian Med Packaging Team
1075241	lucy: ftbfs with GCC-14	sid, trixie
ncbi-blast+ (3) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Vcs Debian Med Packaging Team
891197	Please switch to pcre2	sid, trixie
1074316	ncbi-blast+: Please package version 2.13+ as needed by q2-feature-classifier
1075867	ncbi-blast+: FTBFS with MbedTLS 3.6	ftbfs
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
1075307	ncbi-tools6: ftbfs with GCC-14	trixie, sid, ftbfs
obitools (1) Homepage: https://pypi.python.org/pypi/OBITools Vcs Debian Med Packaging Team
1073586	obitools: extractreads fails to run	patch
paml (1) Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html Vcs Debian Med Packaging Team
1075359	paml: ftbfs with GCC-14	sid, trixie
parsinsert (1) Homepage: http://sourceforge.net/projects/parsinsert/ Vcs Debian Med Packaging Team
964082	parsinsert fails it's tests when built with -O2	bookworm, trixie, sid, bullseye
porechop (1) Homepage: https://rrwick.github.io/Porechop Vcs Debian Med Packaging Team
1074677	porechop: FTBFS: ModuleNotFoundError: No module named 'distutils'	ftbfs, sid, trixie
pycorrfit (1) Homepage: https://pycorrfit.readthedocs.io/ Vcs Debian Med Packaging Team
1074222	pycorrfit FTBFS with Python 3.12 as default	sid, trixie, ftbfs
pymol (1) Homepage: https://www.pymol.org Vcs Debichem Team
602610	Package freemol.mengine for full modeling capabilities
python-cogent (2) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1030885	python-cogent: FTBFS (some tests require more than one CPU)	ftbfs, patch
1074562	python-cogent: binary-any FTBFS	ftbfs
python-py2bit (1) Homepage: https://github.com/deeptools/py2bit/ Vcs Debian Med Packaging Team
1075421	python-py2bit: ftbfs with GCC-14	trixie, sid
python-pyflow (1) Homepage: https://illumina.github.io/pyflow/ Vcs Debian Med Packaging Team
1054591	python3-pyflow: ${VERSION} not expanded in package metadata, causing PEP-440 validation failures
q2-emperor (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1065945	q2-emperor: Please drop dependencies on python3-distutils
q2-feature-table (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
1070988	src:q2-feature-table: fails to migrate to testing for too long: autopkgtest regression	sid, trixie
q2-sample-classifier (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1065946	q2-sample-classifier: Please drop dependencies on python3-distutils
qiime (1) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1068006	qiime: Please replace python3-appdirs dependency with platformdirs	sid, trixie
r-bioc-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-genefilter (1) Homepage: https://bioconductor.org/packages/genefilter/ Vcs Debian R Packages Maintainers
1071341	r-bioc-genefilter: FTBFS: nd.c:75:21: error: format not a string literal and no format arguments	ftbfs
r-bioc-hilbertvis (1) Homepage: https://bioconductor.org/packages/HilbertVis Vcs Debian R Packages Maintainers
1071343	r-bioc-hilbertvis: FTBFS: make_wiggle_vector.c:16:17: error: format not a string literal and no format arguments	ftbfs
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-mutationalpatterns (1) Homepage: https://bioconductor.org/packages/MutationalPatterns/ Vcs Debian R Packages Maintainers
1070842	r-bioc-mutationalpatterns: autopkgtest regression with r-base 4.4.0
r-bioc-rtracklayer (1) Homepage: https://bioconductor.org/packages/rtracklayer/ Vcs Debian R Packages Maintainers
1071347	r-bioc-rtracklayer: FTBFS: handlers.c:10:11: error: format not a string literal and no format arguments	ftbfs
r-bioc-structuralvariantannotation (1) Homepage: https://bioconductor.org/packages/StructuralVariantAnnotation/ Vcs Debian R Packages Maintainers
1025045	r-bioc-structuralvariantannotation: Test failures in autopkgtest	bookworm-ignore, upstream
seer (1) Homepage: https://github.com/johnlees/seer Vcs Debian Med Packaging Team
1074123	FTBFS agaings dlib in experimental	sid, patch, ftbfs, trixie
spades (1) Homepage: http://cab.spbu.ru/software/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"	sid, bookworm, trixie, bullseye, ftbfs
spoa (1) Homepage: https://github.com/rvaser/spoa Vcs Debian Med Packaging Team
1075532	spoa: ftbfs with GCC-14	trixie, sid, ftbfs
sra-sdk (2) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1040391	sra-toolkit: broken symlink: /usr/lib/debian-med/bin/kget -> ../../../bin/vdb-get
1065961	sra-sdk: Please drop dependencies on python3-distutils	ftbfs
ssake (1) Homepage: https://www.bcgsc.ca/platform/bioinfo/software/ssake Vcs Debian Med Packaging Team
1073105	ssake: replace to-be-removed markdown build-dependency	trixie, sid
swarm-cluster (1) Homepage: https://github.com/torognes/swarm Vcs Debian Med Packaging Team
1073106	swarm-cluster: replace to-be-removed markdown build-dependency
varna (1) Homepage: https://varna.lri.fr/ Vcs Debian Med Packaging Team
1073230	varna: autopkgtest regression: errors and than hangs
vienna-rna (1) Homepage: https://www.tbi.univie.ac.at/RNA/ Vcs Debian Med Packaging Team
1074158	FTBFS against dlib in experimental	sid, patch, trixie, 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