Summary

Bugs of task bio

Total bugs: 193

Open bugs: 167

Fixed bugs: 26

Links to other tasks

Tasks overview

Biology 167 (1428)

Biology development 79 (571)

Next generation sequencing 8 (96)

Phylogeny 3 (21)

Cloud 37 (315)

Content management 0 (0)

Covid-19 134 (1151)

Medical data 1 (3)

Dental 0 (0)

Epidemiology 3 (18)

Hospital information systems 0 (0)

Imaging 231 (1075)

Imaging development 91 (602)

Laboratory 1 (9)

Oncology 3 (48)

Pharmacology 1 (9)

Physics 25 (180)

Practice 3 (27)

Psychology 7 (65)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 0 (0)

Tools 33 (218)

Typesetting 67 (538)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	1	0
serious	5	0
important	27	4
normal	85	10
minor	9	1
wishlist	17	8

Summary bugs page of task Biology

Immediately looking into bugs of the dependencies of this task is advised (1428)^*

Open bugs in dependent packages

1 grave, 5 serious, 27 important, 85 normal, 9 minor, 17 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
967243	acedb: depends on deprecated GTK 2
ball (1) Homepage: http://www.ball-project.org/ Vcs Debian Med Packaging Team
982365	ball: reduce Build-Depends
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
983981	bamtools: ftbfs with GCC-11	bookworm, sid
bcftools (4) Homepage: http://samtools.github.io/bcftools/ Vcs Debian Med Packaging Team
819617	FTBFS: any-i386 - floating point idiosyncracies	bullseye, buster, ftbfs, sid, stretch
860682	bcftools: FTBFS on i386: Test failures	bullseye, buster, ftbfs, sid, stretch
860704	python-pysam: FTBFS on i386: build-dependency not installable: bcftools (>= 1.3.1)	bullseye, buster, ftbfs, sid, stretch
870060	bcftools FTBFS on big endian: 107 tests failed	ftbfs, upstream
blasr (1) Homepage: https://github.com/PacificBiosciences/blasr Vcs Debian Med Packaging Team
983631	blasr FTCBFS: multiple reasons	patch
bustools (1) Homepage: https://bustools.github.io/ Vcs Debian Med Packaging Team
986203	bustools: Please provide autopkgtest	newcomer
cdbfasta (1) Homepage: https://github.com/gpertea/cdbfasta Vcs Debian Med Packaging Team
962675	can cdbfasta be marked Multi-Arch: foreign?
cif-tools (1) Homepage: https://github.com/PDB-REDO/cif-tools Vcs Debian Med Packaging Team
984015	cif-tools: ftbfs with GCC-11	bookworm, sid
clonalorigin (2) Homepage: https://github.com/xavierdidelot/clonalorigin Vcs Debian Med Packaging Team
884475	clonalorigin: FTBFS on alpha: tests time out	upstream, wontfix
984018	clonalorigin: ftbfs with GCC-11	bookworm, sid
clustalw (1) Homepage: http://www.clustal.org/clustal2/ Vcs Debian Med Packaging Team
978784	clustalw: ftbfs with autoconf 2.70	bookworm, sid
crac (1) Homepage: https://crac.gforge.inria.fr/ Vcs Debian Med Packaging Team
978794	crac: ftbfs with autoconf 2.70	bookworm, sid
datamash (1) Homepage: https://savannah.gnu.org/projects/datamash/ Vcs Debian Science Maintainers
982869	datamash FTBFS on !x86 32bit: FAIL: tests/decorate-errors	ftbfs, upstream
dawg (1) Homepage: https://github.com/reedacartwright/dawg Vcs Debian Med Packaging Team
903886	dawg: Test suite fails	upstream
deepnano (1) Homepage: https://bitbucket.org/vboza/deepnano Vcs Debian Med Packaging Team
921566	deepnano: autopkgtest times out since 2019-01-11
density-fitness (1) Homepage: https://github.com/PDB-REDO/density-fitness Vcs Debian Med Packaging Team
984034	density-fitness: ftbfs with GCC-11	bookworm, sid
disulfinder (1) Homepage: https://disulfind.dsi.unifi.it/ Vcs Debian Med Packaging Team
984036	disulfinder: ftbfs with GCC-11	bookworm, sid
dssp (1) Homepage: https://github.com/PDB-REDO/dssp Vcs Debian Med Packaging Team
984042	dssp: ftbfs with GCC-11	bookworm, sid
ea-utils (3) Homepage: https://expressionanalysis.github.io/ea-utils/ Vcs Debian Med Packaging Team
846858	src:ea-utils: New version available
862118	ea-utils: New upstream version available
984043	ea-utils: ftbfs with GCC-11	bookworm, sid
ecopcr (1) Homepage: https://git.metabarcoding.org/obitools/ecopcr/wikis/home Vcs Debian Med Packaging Team
986197	ecopcr: Please provide autopkgtest	newcomer
emboss (3) Homepage: http://emboss.sourceforge.net Vcs Debian Med Packaging Team
682042	emboss-data: ships bulky taxonomy and gene ontology data
982036	emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal	bookworm, ftbfs, help, sid
986043	emboss: uses media types that are not registered
falcon (2) Homepage: https://github.com/PacificBiosciences/FALCON Vcs Debian Med Packaging Team
902132	falcon: FTBFS since python-networkx version 2.1-1; fails in test suite	ftbfs, pending
936503	falcon: Python2 removal in sid/bullseye	bullseye, fixed-upstream, pending, sid, upstream
fastqtl (1) Homepage: http://fastqtl.sourceforge.net/ Vcs Debian Med Packaging Team
984055	fastqtl: ftbfs with GCC-11	bookworm, sid
fsm-lite (1) Homepage: https://github.com/nvalimak/fsm-lite Vcs Debian Med Packaging Team
986201	fsm-lite: Please provide autopkgtest	newcomer
gamgi (2) 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
garli (1) Homepage: https://github.com/Ashod/garli Vcs Debian Med Packaging Team
907905	garli: FTBFS randomly (failing tests)	fixed-upstream, ftbfs, upstream
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 (3) 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
984145	gatb-core: ftbfs with GCC-11	bookworm, sid
gdpc (3) 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
981876	gdpc: flaky autopkgtest on i386	bullseye, sid
982103	gdpc: autopkgtest failure on s390x
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
ghemical (2) Homepage: http://bioinformatics.org/ghemical/ghemical/ Vcs Debichem Team
967392	ghemical: depends on deprecated GTK 2
967865	ghemical: depends on deprecated libglade2
graphlan (1) Homepage: https://bitbucket.org/nsegata/graphlan/wiki/Home Vcs Debian Med Packaging Team
981688	graphlan: Wrong homepage
gromacs (4) Homepage: http://www.gromacs.org/ Vcs Debichem Team
644397	Provide runtime detection for CPU SIMD capabilities	upstream
921784	gromacs: unhelpful error message from mpicxx.openmpi	unreproducible
983942	gromacs: ftbfs with -march=x86-64-v3
984161	gromacs: ftbfs with GCC-11	bookworm, sid
hinge (2) Homepage: https://github.com/HingeAssembler/HINGE Vcs Debian Med Packaging Team
958244	Use system libinih-dev
986193	hinge: no autopkgtest available yet	newcomer
htslib (1) Homepage: https://github.com/samtools/htslib Vcs Debian Med Packaging Team
978835	htslib: ftbfs with autoconf 2.70	bookworm, sid
igdiscover (1) Homepage: http://docs.igdiscover.se/en/stable/ Vcs Debian Med Packaging Team
977067	igdiscover: test suite flaky, possibly on high core count machines	confirmed, moreinfo, unreproducible
indelible (1) Homepage: http://abacus.gene.ucl.ac.uk/software/indelible/ Vcs Debian Med Packaging Team
978837	indelible: ftbfs with autoconf 2.70	bookworm, sid
infernal (1) Homepage: http://eddylab.org/infernal/ Vcs Debian Med Packaging Team
978841	infernal: ftbfs with autoconf 2.70	bookworm, sid
jalview (1) Homepage: https://www.jalview.org Vcs Debian Java Maintainers
985567	jalview: [INTL:fr] French templates translation	l10n, patch, pending
jellyfish (2) Homepage: https://www.cbcb.umd.edu/software/jellyfish/ Vcs Debian Med Packaging Team
978843	jellyfish: ftbfs with autoconf 2.70	bookworm, sid
983273	jellyfish: Homepage: needs updating
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
978842	jellyfish1: ftbfs with autoconf 2.70	bookworm, sid
jmol (3) Homepage: http://jmol.sourceforge.net/ Vcs Debichem Team
712791	jmol - exporting the image as PDF saves only partial image	patch
872418	jmol: Weblinks in Help do not work
981989	jmol: FTBFS with OpenJDK 17 due to JSObject.getWindow() removal	bookworm, ftbfs, sid
kaptive (1) Homepage: https://github.com/katholt/Kaptive Vcs Debian Med Packaging Team
986592	kleborate: flaky arm64 autopkgtest: Mutex is not owned by current thread	bullseye, help, sid
khmer (2) Homepage: https://khmer.readthedocs.org Vcs Debian Med Packaging Team
851830	arm64 has flaky tests
984079	khmer: ftbfs with GCC-11	bookworm, pending, sid
kmc (1) Homepage: http://sun.aei.polsl.pl/kmc Vcs Debian Med Packaging Team
983930	kmc: ftbfs with -march=x86-64-v2
lamarc (1) Homepage: https://evolution.gs.washington.edu/lamarc/ Vcs Debian Med Packaging Team
984080	lamarc: ftbfs with GCC-11	bookworm, sid
lastz (1) Homepage: https://github.com/lastz/lastz Vcs Debian Med Packaging Team
984081	lastz: ftbfs with GCC-11	bookworm, sid
libfastahack (1) Homepage: https://github.com/ekg/fastahack Vcs Debian Med Packaging Team
984104	libfastahack: ftbfs with GCC-11	bookworm, sid
libncl (1) Homepage: https://github.com/mtholder/ncl Vcs Debian Med Packaging Team
984188	libncl: ftbfs with GCC-11	bookworm, sid
libsmithwaterman (1) Homepage: https://github.com/ekg/smithwaterman Vcs Debian Med Packaging Team
984207	libsmithwaterman: ftbfs with GCC-11	bookworm, sid
libvcflib (2) Homepage: https://github.com/vcflib/vcflib Vcs Debian Med Packaging Team
984139	freebayes: ftbfs with GCC-11	bookworm, fixed-upstream, sid, upstream
984212	libvcflib: ftbfs with GCC-11	bookworm, fixed-upstream, sid, upstream
ltrsift (1) 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
mapsembler2 (1) Homepage: http://colibread.inria.fr/mapsembler2/ Vcs Debian Med Packaging Team
984226	mapsembler2: ftbfs with GCC-11	bookworm, sid
mash (1) Homepage: https://mash.readthedocs.io Vcs Debian Med Packaging Team
984973	mash FTCBFS -- multiple reasons	patch
mauve-aligner (1) Homepage: https://darlinglab.org/mauve/ Vcs Debian Med Packaging Team
982005	mauve-aligner: FTBFS with OpenJDK 17 due to rmic removal	bookworm, ftbfs, sid
mothur (1) Homepage: https://www.mothur.org Vcs Debian Med Packaging Team
984243	mothur: ftbfs with GCC-11	bookworm, sid
mummer (1) Homepage: http://mummer.sourceforge.net/ Vcs Debian Med Packaging Team
956751	mummerplot incompatible with Debian's version of gnuplot
murasaki (1) Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/ Vcs Debian Med Packaging Team
984250	murasaki: ftbfs with GCC-11	bookworm, patch, sid
nanopolish (1) Homepage: https://github.com/jts/nanopolish Vcs Debian Med Packaging Team
983767	nanopolish ftbfs with the nocheck profile
ncbi-blast+ (3) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Vcs Debian Med Packaging Team
891197	Please switch to pcre2
956850	ncbi-blast+: Please provide /usr/bin/legacy_blast.pl
984871	ncbi-blast+: Missing headers for shared libraries
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
225651	ncbi-tools-x11: want Cn3D++
obitools (1) Homepage: https://pypi.python.org/pypi/OBITools Vcs Debian Med Packaging Team
935340	obitools: Port to Python3 needed	upstream
parsinsert (1) Homepage: http://sourceforge.net/projects/parsinsert/ Vcs Debian Med Packaging Team
964082	parsinsert fails it's tests when built with -O3	bullseye, moreinfo, sid, unreproducible
pbdagcon (1) Homepage: https://github.com/PacificBiosciences/pbdagcon Vcs Debian Med Packaging Team
983630	pbdagcon FTCBFS: python3 dependency not installable	patch
phyx (1) Homepage: https://github.com/FePhyFoFum/phyx Vcs Debian Med Packaging Team
978880	phyx: ftbfs with autoconf 2.70	bookworm, sid
pigx-rnaseq (1) Homepage: https://github.com/BIMSBbioinfo/pigx_rnaseq Vcs Debian Med Packaging Team
985144	pigx-rnaseq -- Fails to build reproducibly: different binaries on usrmerge system	patch
pique (1) Homepage: https://github.com/tony-travis/PIQUE/ Vcs Debian Med Packaging Team
986194	pique: no autopkgtest available yet	newcomer
plink (1) Homepage: http://zzz.bwh.harvard.edu/plink/ Vcs Debian Med Packaging Team
984293	plink: ftbfs with GCC-11	bookworm, sid
prime-phylo (1) Homepage: http://prime.sbc.su.se Vcs Debian Med Packaging Team
970599	src:prime-phylo: no autopkgtest available yet	newcomer
profphd (2) Homepage: http://predictprotein.org/ Vcs Debian Med Packaging Team
897605	profphd failure in stretch
942064	profphd: autopkgtest failure	bullseye, help, sid
proftmb (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
984301	proftmb: ftbfs with GCC-11	bookworm, sid
pymol (6) Homepage: http://www.pymol.org Vcs Debichem Team
602610	Package freemol.mengine for full modeling capabilities
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
929700	pymol: Deprecation warning during startup
986253	build with pie again	patch
qutemol (3) Homepage: http://qutemol.sourceforge.net/ Vcs Debichem Team
642084	qutemol: Cannot start the program
939033	qutemol: Uses GifQuantizeBuffer - stops working with newer giflib
984316	qutemol: ftbfs with GCC-11	bookworm, sid
r-cran-treescape (1) Homepage: https://cran.r-project.org/package=treescape Vcs Debian R Packages Maintainers
961234	r-cran-treescape: FTBFS on ppc64el:Segmentation fault	bullseye, ftbfs, sid
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)	bullseye, ftbfs, sid
seqan2 (2) Homepage: http://www.seqan.de/ Vcs Debian Med Packaging Team
892222	seqan2: FTBFS on hppa: app_test_seqan_tcoffee fails on 2trx.mlcs.fasta	upstream
917851	seqan2 2.4.0+dfsg-9: FTBFS, alignment problem	ftbfs
seqprep (1) Homepage: http://seqanswers.com/wiki/SeqPrep Vcs Debian Med Packaging Team
985069	seqprep FTCBFS -- multiple reasons	patch
seqtools (1) Homepage: https://www.sanger.ac.uk/science/tools/seqtools Vcs Debian Med Packaging Team
967743	seqtools: depends on deprecated GTK 2
sga (1) Homepage: https://github.com/jts/sga Vcs Debian Med Packaging Team
983700	sga: reduce Build-Depends	patch, pending
shovill (1) Homepage: https://github.com/tseemann/shovill Vcs Debian Med Packaging Team
970404	shovill: Please provide autopkgtest
skewer (1) Homepage: https://github.com/relipmoc/skewer Vcs Debian Med Packaging Team
984334	skewer: ftbfs with GCC-11	bookworm, sid
smalt (1) Homepage: https://www.sanger.ac.uk/science/tools/smalt-0 Vcs Debian Med Packaging Team
985071	smalt: native FTBFS with DEB_BUILD_OPTIONS=nocheck
snap-aligner (1) Homepage: http://snap.cs.berkeley.edu/ Vcs Debian Med Packaging Team
848589	snap-aligner: Build requires 188 GB of memory (fortunately not used, just allocated)
spades (2) Homepage: http://cab.spbu.ru/software/spades/ Vcs Debian Med Packaging Team
853113	spades: Fails to build with unhelpful error message in a "low" memory machine
976523	spades: FTBFS: jemalloc_internal.h:292:6: error: #error "No LG_QUANTUM definition for architecture; specify via CPPFLAGS"	bullseye, ftbfs, sid
spoa (1) Homepage: https://github.com/rvaser/spoa Vcs Debian Med Packaging Team
984348	spoa: ftbfs with GCC-11	bookworm, sid
subread (1) Homepage: http://sourceforge.net/projects/subread/ Vcs Debian Med Packaging Team
984978	subread FTCBFS -- multiple reasons	patch
t-coffee (1) Homepage: http://www.tcoffee.org/Projects/tcoffee/index.html Vcs Debian Med Packaging Team
956848	t-coffee: should use "example" blastpgp.pl
tigr-glimmer (1) Homepage: http://ccb.jhu.edu/software/glimmer/index.shtml Vcs Debian Med Packaging Team
984367	tigr-glimmer: ftbfs with GCC-11	bookworm, sid
tnseq-transit (1) Homepage: http://saclab.tamu.edu/essentiality/transit/ Vcs Debian Med Packaging Team
984958	tnseq-transit: spews SyntaxWarning during installation
tortoize (1) Homepage: https://github.com/PDB-REDO/tortoize Vcs Debian Med Packaging Team
984369	tortoize: ftbfs with GCC-11	bookworm, sid
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://trinityrnaseq.github.io/ Vcs Debian Med Packaging Team
981874	trinityrnaseq: flaky autopkgtest	bullseye, sid
tvc (1) Homepage: http://ioncommunity.thermofisher.com Vcs Debian Med Packaging Team
984370	tvc: ftbfs with GCC-11	bookworm, sid
umap-learn (1) Homepage: https://github.com/lmcinnes/umap Vcs Debian Med Packaging Team
980509	umap-learn: Binary package name should be python3-umap-learn	pending
vg (1) 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, ftbfs, sid
viewmol (7) Homepage: http://viewmol.sourceforge.net/ Vcs Debichem Team
446750	reading vmol files: coord factor ignored and misdefined
446753	pdb import is broken
716250	[Mayhem] Bug report on viewmol: readpdb crashes with exit status 139
716256	[Mayhem] Bug report on viewmol: readgamess crashes with exit status 139
875522	viewmol: Please stop installing deprecated mimelnk files
938774	viewmol: Python2 removal in sid/bullseye	bullseye, sid
967229	viewmol: Unversioned Python removal in sid/bullseye	bullseye, sid
vsearch (1) Homepage: https://github.com/torognes/vsearch/ Vcs Debian Med Packaging Team
978918	vsearch: ftbfs with autoconf 2.70	bookworm, sid
zalign (1) Homepage: https://launchpad.net/zalign Vcs Debian Med Packaging Team
978928	zalign: ftbfs with autoconf 2.70	bookworm, sid

Open bugs in suggested packages

4 important, 10 normal, 1 minor, 8 wishlist

arb (3) Homepage: http://www.arb-home.de/ Vcs Debian Med Packaging Team
916406	libarb-dev: Missing symbols in static libraries
918015	[INTL:sv] Swedish strings for arb debconf	l10n, patch
926017	arb: Typo in package description: "website links unreachable, description outdated"
bcbio (1) Homepage: https://github.com/bcbio/bcbio-nextgen Vcs Debian Med Packaging Team
928076	bcbio: Workflows not ready for non-developers to depend on.
caftools (1) Homepage: https://www.sanger.ac.uk/science/tools/caf Vcs Steffen Moeller
986487	caftools: FTBFS with glibc >= 2.32	patch
hdf5 (14) 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
972537	please add --enable-ros3-vfd to the build options to allow RO access to HDF5 on S3
973261	libhdf5-openmpi-dev: installing requires /proc being mounted
intake (1) Homepage: https://github.com/intake/intake Vcs Debian Med Packaging Team
970312	src:intake: Please provide autopkgtest	newcomer
python-loompy (1) Homepage: https://github.com/linnarsson-lab/loompy Vcs Debian Med Packaging Team
970309	src:python-loompy: Please provide autopkgtest	newcomer
q2-quality-control (1) Homepage: https://qiime2.org/ Vcs Debian Med Packaging Team
982139	q2-quality-control: test skipped on ppc64el
sift (1) Homepage: http://sift.bii.a-star.edu.sg/ Vcs Debian Med Packaging Team
986200	sift: Please provide autopkgtest	newcomer

Done bugs

assembly-stats (2) Homepage: https://github.com/sanger-pathogens/assembly-stats Vcs Debian Med Packaging Team
984889	assembly-stats natively FTBFS: error: gtest/gtest.h: No such file or directory	patch
984890	assembly-stats FTCBFS: uses DEB_BUILD_GNU_TYPE	patch
bamtools (1) Homepage: https://github.com/pezmaster31/bamtools/wiki Vcs Debian Med Packaging Team
987023	bamtools: autopkgtest failure: times out on armhf and s390x
changeo (1) Homepage: https://changeo.readthedocs.io Vcs Debian Med Packaging Team
970597	src:changeo: no autopkgtest available yet	newcomer
emboss (1) Homepage: http://emboss.sourceforge.net Vcs Debian Med Packaging Team
985596	emboss has mailcap entries with quoted %-escapes	patch, security
freecontact (1) Homepage: http://rostlab.org/ Vcs Debian Med Packaging Team
986524	freecontact: FTBFS: devlibs error: There is no package matching [libgfortran-8-dev] and noone provides it, please report bug to d-shlibs maintainer	bullseye, ftbfs, sid
gemma (2) Homepage: https://www.xzlab.org/software.html Vcs Debian Med Packaging Team
982692	gemma: FTBFS: dh_auto_test: error: make -j1 check returned exit code 2	bullseye, ftbfs, sid
985004	gemma: flaky armhf autopkgtest: regularly times out after 2:47 h	bullseye, sid
gromacs (1) Homepage: http://www.gromacs.org/ Vcs Debichem Team
985157	gromacs-data: broken bash-completion scripts for gmx
gubbins (1) Homepage: https://sanger-pathogens.github.io/gubbins/ Vcs Debian Med Packaging Team
986238	gubbins: broken symlink: /usr/bin/gubbins_drawer -> ../share/gubbins/gubbins_drawer.py
htslib (3) Homepage: https://github.com/samtools/htslib Vcs Debian Med Packaging Team
749367	htslib FTBFS on testing for mips/mipsel	bullseye, buster, moreinfo, patch, sid, stretch
800469	htslib FTBFS on armhf, bus error.	bullseye, buster, ftbfs, patch, sid, stretch
849667	htslib: FTBFS on armhf: [test] Bus error	bullseye, buster, ftbfs, patch, sid, stretch
hyphy (3) Homepage: https://hyphy.org/ Vcs Debian Med Packaging Team
961382	hyphy: baseline violation on amd64/i386
977992	hyphy: FTBFS on hurd-i386: wrong reference to the build directory	patch
985284	hyphy-common: unhandled symlink to directory conversion: /usr/lib/hyphy -> ../share/hyphy
jalview (1) Homepage: https://www.jalview.org Vcs Debian Java Maintainers
985448	jalview: please make the build reproducible	patch
kineticstools (1) Homepage: https://github.com/PacificBiosciences/kineticsTools Vcs Debian Med Packaging Team
958471	src:kineticstools: Non-free data included in source
kmc (1) Homepage: http://sun.aei.polsl.pl/kmc Vcs Debian Med Packaging Team
954270	kmc: autopgktest times out on multimulticore hosts	confirmed
primer3 (1) Homepage: http://primer3.sourceforge.net Vcs Debian Med Packaging Team
962190	primer3: please disable Big Endian tests on autopkgtests too	patch
profnet (1) Homepage: https://www.predictprotein.org/ Vcs Debian Med Packaging Team
905206	profnet: autopkgtest regression	upstream
radiant (1) Homepage: https://github.com/marbl/Krona Vcs Debian Med Packaging Team
985523	radiant: broken symlink: /usr/bin/ktImportMETAREP-blast -> ../share/perl5/KronaTools/scripts/ImportMETAREP-blast.pl
scrappie (1) Homepage: https://github.com/nanoporetech/scrappie Vcs Debian Med Packaging Team
986307	scrappie: flaky armhf autopkgtest: Invalid control character at: line 1 column 91 (char 90)	bullseye, sid
seqsero (2) Homepage: https://github.com/denglab/SeqSero Vcs Debian Med Packaging Team
970598	src:seqsero: no autopkgtest available yet	newcomer
984854	seqsero: Seqsero invokes python2.7 during execution
simka (1) Homepage: https://github.com/GATB/simka Vcs Debian Med Packaging Team
986256	simka: flaky amd64 autopkgtest: regularly times out after 2:47 h	bullseye, sid

^*To estimate the overall status of the packages in the dependencies of a metapackage a weighted severity is calculated. Done bugs are ignored and bugs in dependent and recommended packages are weighted by factor three compared to suggested packages. Release critical bugs have a much larger weight than important, while the contribution of normal bugs is even smaller and minor bugs have a very small weight. Wishlist bugs are ignored in this calculation. The resulting sum is compared to some boundaries to find a verbal form. The actual numbers need some adjustment to make real sense - this evaluation method is in testing phase.
The severities of bugs are weighted as follows:

critical	10
grave	10
serious	10
important	5
normal	3
minor	1
wishlist	0