Summary

Bugs of task cloud

Total bugs: 66

Open bugs: 59

Fixed bugs: 7

Links to other tasks

Tasks overview

Biology 258 (2638)

Biology development 107 (834)

Next generation sequencing 6 (39)

Phylogeny 11 (153)

Cloud 59 (759)

Content management 0 (0)

Covid-19 173 (1714)

Medical data 0 (0)

Dental 2 (12)

Epidemiology 9 (57)

Hospital information systems 2 (24)

Imaging 202 (812)

Imaging development 74 (504)

Laboratory 1 (9)

Oncology 1 (3)

Pharmacology 1 (9)

Physics 28 (207)

Practice 6 (45)

Psychology 12 (133)

Rehabilitation 0 (0)

Research 0 (0)

Statistics 4 (16)

Tools 37 (257)

Typesetting 74 (561)

Legend

Severity	Dependent	Suggested
critical	0	0
grave	0	0
serious	7	0
important	28	0
normal	12	0
minor	7	0
wishlist	5	0

Summary bugs page of task Cloud

Immediately looking into bugs of the dependencies of this task is advised (759)^*

Open bugs in dependent packages

7 serious, 28 important, 12 normal, 7 minor, 5 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 (2) Homepage: https://gitlab.inria.fr/NGS/ALTree Vcs Debian Med Packaging Team
1067631	src:altree: autopkgtest timeouts on armel, armhf and ppc64el
1096300	altree: ftbfs with GCC-15	forky, sid
ampliconnoise (1) Homepage: https://github.com/lanzen/ampliconnoise Vcs Debian Med Packaging Team
1096305	ampliconnoise: ftbfs with GCC-15	forky, sid
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
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
coils (1) Homepage: http://www.russelllab.org/coils/ Vcs Debian Med Packaging Team
1096450	coils: ftbfs with GCC-15	forky, sid
datamash (4) 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
1096504	datamash: ftbfs with GCC-15	forky, sid
emboss (5) 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
1096578	emboss: ftbfs with GCC-15	forky, sid
fastlink (1) Homepage: https://www.ncbi.nlm.nih.gov/CBBResearch/Schaffer/fastlink.html Vcs Debian Med Packaging Team
1096612	fastlink: ftbfs with GCC-15	forky, sid
freecontact (1) Homepage: https://rostlab.org/ Vcs Debian Med Packaging Team
1096651	freecontact: ftbfs with GCC-15	forky, sid
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
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
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
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
mafft (1) Homepage: https://mafft.cbrc.jp/alignment/software/ Vcs Debian Med Packaging Team
1097352	mafft: ftbfs with GCC-15	forky, sid
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
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
ncbi-blast+ (6) 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
1097434	ncbi-blast+: ftbfs with GCC-15	forky, sid
ncbi-tools6 (1) Homepage: https://www.ncbi.nlm.nih.gov/IEB/ToolBox/ Vcs Debian Med Packaging Team
225651	ncbi-tools-x11: want Cn3D++
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
prime-phylo (2) 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
1097647	prime-phylo: ftbfs with GCC-15	forky, sid
primer3 (1) Homepage: http://primer3.sourceforge.net Vcs Debian Med Packaging Team
1097649	primer3: ftbfs with GCC-15	forky, sid
probabel (1) Homepage: http://www.genabel.org Vcs Debian Med Packaging Team
1091575	probabel: FTBFS on i386: dh_auto_test: error: make -j8 check "TESTSUITEFLAGS=-j8 --verbose" VERBOSE=1 returned exit code 2	ftbfs, sid, trixie
python-cogent (2) Homepage: https://github.com/cogent3/cogent3 Vcs Debian Med Packaging Team
1058479	python-cogent: please (temporarily) drop python3-numba dependencies	wontfix
1090269	python-cogent: FTBFS: E ImportError: Numba could not be imported.	ftbfs
qiime (2) Homepage: https://qiime2.org Vcs Debian Med Packaging Team
1076314	qiime hard-codes python 3.11 without depending on it	pending, sid, trixie
1084668	qiime: removal of Python standard libraries in Python 3.13	fixed-upstream, pending
r-cran-pvclust (1) Homepage: http://www.is.titech.ac.jp/~shimo/prog/pvclust/ Vcs Debian R Packages Maintainers
1081769	r-cran-pvclust: homepage defunct
raster3d (1) Homepage: http://www.bmsc.washington.edu/raster3d/raster3d.html Vcs Debian Med Packaging Team
1097773	raster3d: ftbfs with GCC-15	forky, sid
readseq (1) Homepage: http://iubio.bio.indiana.edu/soft/molbio/readseq/ Vcs Debian Med Packaging Team
1097779	readseq: ftbfs with GCC-15	forky, 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
sim4 (1) Homepage: https://globin.bx.psu.edu/html/docs/sim4.html Vcs Debian Med Packaging Team
1097885	sim4: ftbfs with GCC-15	forky, sid
soapdenovo (1) Homepage: http://soap.genomics.org.cn/soapdenovo.html Vcs Debian Med Packaging Team
1097907	soapdenovo: ftbfs with GCC-15	forky, sid
soapdenovo2 (1) Homepage: http://soap.genomics.org.cn/soapdenovo.html Vcs Debian Med Packaging Team
1097909	soapdenovo2: ftbfs with GCC-15	forky, sid
sra-sdk (3) Homepage: https://github.com/ncbi/sra-tools/ Vcs Debian Med Packaging Team
1084404	sra-sdk: move from fuse to fuse3
1087096	sra-sdk: Python SyntaxWarning	patch, pending
1097930	sra-sdk: ftbfs with GCC-15	forky, sid
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
veryfasttree (1) Homepage: https://github.com/citiususc/veryfasttree Vcs Debian Med Packaging Team
1098063	veryfasttree: ftbfs with GCC-15	forky, sid
wise (1) Homepage: https://www.ebi.ac.uk/~birney/wise2/ Vcs Debian Med Packaging Team
1098098	wise: ftbfs with GCC-15	forky, sid

Open bugs in suggested packages

Done bugs

fastdnaml (1) Homepage: https://www.life.illinois.edu/gary/programs/fastDNAml.html Vcs Debian Med Packaging Team
1096609	fastdnaml: ftbfs with GCC-15	forky, sid
gmap (1) Homepage: http://research-pub.gene.com/gmap Vcs Debian Med Packaging Team
1096727	gmap: ftbfs with GCC-15	forky, patch, sid
last-align (1) Homepage: https://gitlab.com/mcfrith/last Vcs Debian Med Packaging Team
1098290	src:last-align: fails to migrate to testing for too long	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, bullseye, 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
poa (1) Homepage: http://poamsa.sourceforge.net/ Vcs Debian Med Packaging Team
1097626	poa: ftbfs with GCC-15	forky, sid
python-biopython (1) Homepage: https://biopython.org Vcs Debian Med Packaging Team
1095105	python-biopython: FTBFS on s390x: ValueError: 1 Tutorial doctests failed: test_chapter_pdb_line_00071	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