Debian Med Project
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Bugs of task bio-dev
Total bugs: 48
Open bugs: 44
Fixed bugs: 4
Links to other tasks
Biology 119 (849)
Phylogeny 8 (66)
Cloud 40 (324)
Medical data 1 (9)
Dental 0 (0)
Epidemiology 0 (0)
Imaging 178 (940)
Laboratory 0 (0)
Oncology 1 (15)
Pharmacology 1 (9)
Physics 31 (273)
Practice 2 (9)
Psychology 6 (63)
Research 0 (0)
Statistics 2 (6)
Tools 34 (204)
Typesetting 95 (523)
critical 0 0
grave 0 0
serious 2 1
important 7 1
normal 15 1
minor 2 0
wishlist 15 0

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (324)*

Open bugs in dependent packages

2 serious, 7 important, 15 normal, 2 minor, 15 wishlist
749736 biococoa: GCC warnings that may lead to runtime issues with new GNUstep libraries jessie, sid, stretch
659824 biojava-live: New version available
859958 biojava-live: please make the build reproducible
843712 biojava4-live: FTBFS (failing tests)
851658 ffindex: autopkgtests need 6GB of memory to run
814617 freecontact: adequate reports symbol-size-mismatch /usr/bin/freecontact => _ZN11xercesc_3_16XMLUni18fgXercesLoadSchemaE
853405 freecontact: ftbfs with GCC-7 buster, sid
860674 htseq: FTBFS on i386: build-dependency not installable: python-pysam sid, stretch
749367 htslib FTBFS on testing for mips/mipsel moreinfo, patch, sid, stretch
774109 htslib: FTBFS on hppa
800469 htslib FTBFS on armhf, bus error. patch, sid, stretch
849667 htslib: FTBFS on armhf: [test] Bus error patch, sid, stretch
860636 kineticstools: FTBFS on i386: build-dependency not installable: python-pbcore (>= 1.2.8) sid, stretch
853482 libbpp-seq-omics: ftbfs with GCC-7 buster, sid
854341 libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME help, moreinfo, unreproducible
858524 libhmsbeagle-dev: broken symlink: /usr/include/libhmsbeagle -> libhmsbeagle-2
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
860665 libvcflib: FTBFS on i386: build-dependency not installable: libssw-dev sid, stretch
225651 ncbi-tools-x11: want Cn3D++
813559 ngs-sdk: FTBFS: most platforms explicitly unsupported
784502 [openms] Qt4's WebKit removal
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)
853595 openms: ftbfs with GCC-7 buster, sid
829741 pbbam: FTBFS (32-bit): pbmerge assertion failure
860616 pbh5tools: FTBFS on i386: build-dependency not installable: python-pbcore sid, stretch
860671 pbseqlib: FTBFS on i386: build-dependency not installable: libpbbam-dev sid, stretch
710121 pyfai: Please package the latest pyFAI
820060 python-biom-format: broken on big-endian architectures
672407 python-biopython: duplicate mathml2.dtd
860615 python-pbcommand: FTBFS on i386: build-dependency not installable: python-pbcore sid, stretch
860158 python-pbcore: prints warnings with recent h5py on ppc64el
860644 python-pbcore: FTBFS on i386: build-dependency not installable: python-pysam (>= 0.9.0) sid, stretch
834856 python-pysam: FTBFS on 32-bit architectures: segmentation fault in testsuite help
860704 python-pysam: FTBFS on i386: build-dependency not installable: bcftools (>= 1.3.1) sid, stretch
841073 python-ruffus: Needs 18 GB of RAM to build
751414 rdkit: postgresql cartridge not built
710225 staden-io-lib: library name should follow ABI version (not project version)
826505 swissknife: Unescaped left brace in regex is deprecated

Open bugs in suggested packages

1 serious, 1 important, 1 normal
852654 src:pbcopper: no point to releasing it without `unanimity`
855625 r-bioc-iranges: ships dangling symlink /usr/share/doc/r-bioc-iranges/RleTricks.pdf
845752 r-bioc-shortread FTBFS on armel: Error: segfault from C stack overflow

Done bugs

836230 FTBFS in a low memory machine with poor error message
742921 python-htseq: python.numpy dtype size error
730515 cd-hit-est is cdhit-est in Debian [Why?]
861496 python-pysam: accesses network during build
*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: Mon, 29 May 2017 06:20:20 -0000