Debian Med Project
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Bugs of task bio-dev
Total bugs: 68
Open bugs: 46
Fixed bugs: 22
Links to other tasks
Biology 102 (1219)
Phylogeny 6 (44)
Cloud 35 (434)
Medical data 1 (0)
Dental 1 (9)
Epidemiology 2 (39)
Imaging 207 (1087)
Laboratory 0 (0)
Oncology 0 (0)
Pharmacology 0 (0)
Physics 26 (219)
Practice 3 (9)
Psychology 12 (152)
Research 0 (0)
Statistics 3 (7)
Tools 37 (239)
Typesetting 77 (583)
critical 1 0
grave 1 0
serious 10 1
important 4 0
normal 20 0
minor 1 0
wishlist 8 0

Summary bugs page of task Biology development

Immediately looking into bugs of the dependencies of this task is advised (613)*

Open bugs in dependent packages

1 critical, 1 grave, 10 serious, 4 important, 20 normal, 1 minor, 8 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
814617 freecontact: adequate reports symbol-size-mismatch /usr/bin/freecontact => _ZN11xercesc_3_16XMLUni18fgXercesLoadSchemaE
897750 freecontact: ftbfs with GCC-8 buster, sid
877590 FTBFS: error: package org.testng does not exist buster, sid
900011 src:htsjdk: Fake bug to prevent migration to testing
902591 kineticstools: autopkgtest failure with NumPy 1.14
897780 libbpp-core: ftbfs with GCC-8 buster, sid
897781 libbpp-phyl-omics: ftbfs with GCC-8 buster, sid
897782 libbpp-popgen: ftbfs with GCC-8 buster, sid
897783 libbpp-qt: ftbfs with GCC-8 buster, sid
897784 libbpp-seq: ftbfs with GCC-8 buster, sid
897785 libbpp-seq-omics: ftbfs with GCC-8 buster, sid
858524 libhmsbeagle-dev: broken symlink: /usr/include/libhmsbeagle -> libhmsbeagle-2
897795 librcsb-core-wrapper: ftbfs with GCC-8 buster, 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
897797 libsmithwaterman: ftbfs with GCC-8 buster, sid
225651 ncbi-tools-x11: want Cn3D++
813559 ngs-sdk: FTBFS: most platforms explicitly unsupported ftbfs
784502 [openms] Qt4's WebKit removal buster, sid
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, fixed-upstream, sid
865240 Please update dependencies from latex-xcolor to tl-latex-recommended buster, ftbfs, sid
871297 libopenms2.0: requires rebuild against GCC 7 and symbols/shlibs bump buster, sid
875073 [openms] Future Qt4 removal from Buster
881026 openms: Transition to xerces-c3.2
829741 pbbam: FTBFS (32-bit): pbmerge assertion failure 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
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
898207 r-cran-rnexml: autopkgtest regression
751414 rdkit: postgresql cartridge not built
881562 rdkit: Please migrate away from Epydoc if possible
894202 rdkit FTBFS on 32bit: test hang ftbfs
890691 ruby-bio FTBFS with ruby 2.5 buster, ftbfs, sid

Open bugs in suggested packages

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

Done bugs

742921 python-htseq: python.numpy dtype size error
894289 htsjdk FTBFS with openjdk-9 ftbfs
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
890400 libbpp-core3: ABI change without soname chenge
890405 libbpp-core3: ABI change without soname chenge
891745 libseqlib-dev: /usr/include/SeqLib/BamWalker.h includes file locations no longer provided by libhts-dev
883845 mgltools-vision: Source includes "Vision/doc/Examples/lena.jpg" listed in Files-Excluded header
879619 ncbi-tools6: Please provide autopkgtest
902364 ncbi-data,ncbi-rrna-data: Replaces without Breaks allow invalid partial up/downgrades
902566 libncbi-vdb2: accidental ABI break in 2.9.1, fixed in upstream 2.9.1-1 release upstream
898567 pbseqlib: FTBFS against HDF5 1.10.2 patch
896629 FTBFS with sphinx 1.7.2: exception: cannot import name 'Directive' buster, ftbfs, sid
901073 python-biom-format autopkg test failure help, upstream
672407 python-biopython: duplicate mathml2.dtd
730515 cd-hit-est is cdhit-est in Debian [Why?]
899205 python-cogent: Test suite fails with latest matplotlib help
900485 python-pbcore: FTBFS and Debci failure with NumPy 1.14 buster, fixed-upstream, ftbfs, help, patch, sid, upstream
903531 python-ruffus FTBFS with Python 3.7 as supported version ftbfs
855625 r-bioc-iranges: ships dangling symlink /usr/share/doc/r-bioc-iranges/RleTricks.pdf
897239 librelion+mpi+gui-dev: uninstallable everywhere but on amd64,i386
*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, 16 Jul 2018 06:43:51 -0000