Debian Med Project
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Bugs of task bio-dev
Total bugs: 57
Open bugs: 38
Fixed bugs: 19
Links to other tasks
Biology 114 (1337)
Phylogeny 9 (93)
Cloud 43 (411)
Medical data 1 (0)
Dental 1 (30)
Epidemiology 3 (69)
Imaging 227 (1359)
Imaging development 101 (1082)
Laboratory 0 (0)
Oncology 0 (0)
Pharmacology 0 (0)
Physics 26 (219)
Practice 3 (30)
Psychology 11 (122)
Research 0 (0)
Statistics 3 (7)
Tools 37 (246)
Typesetting 81 (601)
critical 0 0
grave 1 0
serious 11 1
important 4 0
normal 12 0
minor 2 0
wishlist 7 0

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (544)*

Open bugs in dependent packages

1 grave, 11 serious, 4 important, 12 normal, 2 minor, 7 wishlist
865130 reapr FTBFS on big endian: Error sampling from files '00.Sample/fragCov.gz', '00.assembly.fa.gc.gz' ftbfs, upstream
749736 biococoa: GCC warnings that may lead to runtime issues with new GNUstep libraries buster, jessie, sid, stretch
843712 biojava4-live: FTBFS (failing tests)
659824 biojava-live: New version available
907624 ffindex: ffindex_modify segfaults during autopkgtest ftbfs
814617 freecontact: adequate reports symbol-size-mismatch /usr/bin/freecontact => _ZN11xercesc_3_16XMLUni18fgXercesLoadSchemaE
877590 FTBFS: error: package org.testng does not exist buster, sid
902591 kineticstools: autopkgtest failure with NumPy 1.14
858524 libhmsbeagle-dev: broken symlink: /usr/include/libhmsbeagle -> libhmsbeagle-2
897795 librcsb-core-wrapper: ftbfs with GCC-8 buster, ftbfs, patch, sid
832138 librostlab-blast: The package should compile without forcing the older -std=c++03
851472 librostlab-blast: autopkg test suite failure
847013 src:libsbml: build python3 bindings help
896531 libsbml5-perl: Can't locate loadable object for module LibSBML patch
901455 FTBFS in sid: package is not visible ftbfs
225651 ncbi-tools-x11: want Cn3D++
908353 ncbi-tools6 FTCBFS: uses the build architecture compiler patch, pending
813559 ngs-sdk: FTBFS: most platforms explicitly unsupported ftbfs
816562 libopenms2.0: fails to upgrade from 'jessie' - trying to overwrite /usr/share/man/man3/libopenms.3.gz
822412 openms: non-free WSDL-Schema (ND); incomplete copyright (missing DSL, BSL-1.0 licenses)
906561 openms: Homepage: field needs updating
906666 openms FTBFS on armel/armhf: error: expected class-name before '{' token ftbfs
829741 pbbam: FTBFS (32-bit): pbmerge assertion failure fixed-upstream, ftbfs
908269 pbbam: autopkgtest regression
909071 pbbam: FTBFS on every release architecture where it previously built ftbfs
908615 pyfai: FTBFS and autopkgtest fails with python3.7 in supported versions fixed-upstream, ftbfs
820060 python-biom-format: broken on big-endian architectures
896953 python-biom-format: autopkgtest fails with new version while succeeded in the past; autodep8 not ready yet
883860 python-biopython: SeqRecord broken on Debian packages when python-biopython-sql package is not installed upstream
904709 python-cobra ftbfs (test failures) buster, ftbfs, sid
881555 python-csb: Please migrate away from Epydoc if possible
860158 python-pbcore: prints warnings with recent h5py on ppc64el
841073 python-ruffus: Needs 18 GB of RAM to build
906156 python-skbio ftbfs in unstable, and autopkg tests fail (Python 3.7 tests) buster, ftbfs, sid, upstream
751414 rdkit: postgresql cartridge not built
881562 rdkit: Please migrate away from Epydoc if possible
894202 rdkit FTBFS on 32bit: test hang ftbfs

Open bugs in suggested packages

1 serious
852654 src:pbcopper: no point to releasing it without `unanimity`

Done bugs

910655 fast5: please make the build reproducible patch
742921 python-htseq: python.numpy dtype size error
749367 htslib FTBFS on testing for mips/mipsel buster, moreinfo, patch, sid, stretch
800469 htslib FTBFS on armhf, bus error. buster, ftbfs, patch, sid, stretch
849667 htslib: FTBFS on armhf: [test] Bus error buster, ftbfs, patch, sid, stretch
905438 htslib: FTBFS on i386: 2 tests fail ftbfs
908501 Does not depend on zlib1g-dev
890400 libbpp-core3: ABI change without soname chenge
890405 libbpp-core3: ABI change without soname chenge
897780 libbpp-core: ftbfs with GCC-8 buster, ftbfs, sid
897781 libbpp-phyl-omics: ftbfs with GCC-8 buster, ftbfs, sid
897782 libbpp-popgen: ftbfs with GCC-8 buster, ftbfs, sid
897784 libbpp-seq: ftbfs with GCC-8 buster, ftbfs, sid
897785 libbpp-seq-omics: ftbfs with GCC-8 buster, ftbfs, sid
906481 libfastahack: FTBFS in buster/sid (ld: cannot find -lfastahack) buster, ftbfs, patch, sid
883845 mgltools-vision: Source includes "Vision/doc/Examples/lena.jpg" listed in Files-Excluded header
871297 libopenms2.0: requires rebuild against GCC 7 and symbols/shlibs bump buster, sid
910206 libpbbam-dev: missing Breaks+Replaces: libpbbam (<< 0.18)
730515 cd-hit-est is cdhit-est in Debian [Why?]
*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:
Last update: Tue, 16 Oct 2018 06:52:44 -0000