Debian Med Project
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Bugs of task covid-19
Total bugs: 159
Open bugs: 138
Fixed bugs: 21
Links to other tasks
Biology 133 (1379)
Phylogeny 3 (12)
Cloud 29 (333)
Covid-19 138 (1464)
Medical data 0 (0)
Dental 0 (0)
Epidemiology 7 (139)
Imaging 212 (1123)
Laboratory 1 (9)
Oncology 2 (39)
Pharmacology 1 (9)
Physics 26 (201)
Practice 6 (45)
Psychology 4 (42)
Research 0 (0)
Statistics 1 (3)
Tools 29 (200)
Typesetting 66 (535)
critical 0 0
grave 1 0
serious 11 2
important 31 2
normal 64 0
minor 11 0
wishlist 16 0

Summary bugs page of task Covid-19

Immediately looking into bugs of the dependencies of this task is advised (1464)*

Open bugs in dependent packages

1 grave, 11 serious, 31 important, 64 normal, 11 minor, 16 wishlist
920282 abyss fails to build on hurd - googletest EXPECT_DEATH
870060 bcftools FTBFS on big endian: 107 tests failed ftbfs, upstream
1010653 busco: add autopkgtest to check integration with hmmer and prodigal
935879 Update to use CharLS 2.0 upstream
988644 Defined Term: ISO 2022 IR 87 is not supported confirmed, upstream
989108 dcmtk-doc: broken symlink: /usr/share/doc/dcmtk-doc/html/jquery.js -> ../../../javascript/jquery/jquery.js
990134 dcmtk: legacy conffiles leftover
990135 dcmtk: leftovers after package purge
995966 epigrass: epirunner and epidash fail to run due to missing dash modules
998265 epigrass: autopkgtest regression: The 'panel' distribution was not found
731435 warning: iteration 55823u invokes undefined behavior [-Waggressive-loop-optimizations] patch, upstream
749783 gdcm: Conflicting declarations of jpeg_memory_mgr may lead to invalid function calls
826048 Faulty CMake file impairs compiling against GDCM moreinfo, wontfix
1013156 gdcm: vtk[6,7] removal
644397 Provide runtime detection for CPU SIMD capabilities upstream
983942 gromacs: ftbfs with -march=x86-64-v3
1012946 htscodecs: ftbfs with GCC-12 bookworm, sid
1012952 ivar: ftbfs with GCC-12 bookworm, sid
762353 libaqbanking-data: Missing sentence to translate l10n
1006686 libchipcard-dev: undefined variable in libchipcard-client.pc fixed-upstream, patch, upstream
1006687 libchipcard6: card.c leaks memory patch, upstream
934619 libmaus2 FTBFS (mostly 32bit): error: no matching function for call fixed-upstream, ftbfs, help, upstream
996981 multiqc: Link to jquery missing
891197 Please switch to pcre2
956850 ncbi-blast+: Please provide /usr/bin/
984871 ncbi-blast+: Missing headers for shared libraries
1010110 ncbi-blast+: terminate called after throwing an instance of 'ncbi::CIO_Exception' wontfix
1001387 Wishlist: Package Stone of Orthanc Webviewer
1011156 picard-tools: FTBFS with OpenJDK 17 due to com.sun.javadoc removal bookworm, ftbfs, sid
1013577 picard-tools: FTBFS: error: cannot find symbol bookworm, ftbfs, sid
1009156 pplacer: Add autopkgtest
998854 undefined symbol: _PyUnicode_DecodeUnicodeEscape bookworm, fixed-upstream, sid, upstream, wontfix
1013713 python-biom-format: FTBFS: pytest7 regression, not sure what the problem is bookworm, ftbfs, sid
1009118 python3-biopython: incompatible with muscle >= 5 confirmed, fixed-upstream, upstream, wontfix
979625 autopkgtest: ModuleNotFoundError (ipytree) and AssertionError
860158 python-pbcore: prints warnings with recent h5py on ppc64el
1008452 python-streamz: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.10 3.9" returned exit code 13 bookworm, ftbfs, sid
983517 pytorch: Build documentation
997931 libtorch-dev: Caffe2Targets.cmake is broken
1004782 pytorch: FTBFS with ffmpeg 5.0 bookworm, ftbfs, sid
1009200 pytorch: (autopkgtest) needs update for python3.10: 'float' object cannot be interpreted as an integer bookworm, sid
1008252 salmon: FTBFS in unstable and testing ftbfs
1008254 salmon: FTBFS with glibc 2.34 ftbfs
1011662 salmon ftbfs against onetbb/experimental: tbb api break
1011742 salmon: FTBFS with onetbb/2021.5.0-8 in experimental ftbfs
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" bookworm, bullseye, ftbfs, sid
1011968 spades: autopkgtest regression
170477 xmltex: can't make DVI/PS from DocBook orderedlist/itemizedlist
181444 xmltex: can't make DVI/PS from DocBook orderedlist/itemizedlist
184072 xmltex: can't make DVI/PS from DocBook orderedlist/itemizedlist
184086 xmltex: can't make DVI/PS from DocBook orderedlist/itemizedlist
189616 jadetex: Japanese JadeTeX
234884 Cannot generate PDF when callouts are used
310148 xmlto: pdf output fails with LaTeX errors
345637 xmltex: behaves as if --force-confold had been given
427443 provide a documentation index (like tetex had)
444084 tex4ht: you-on gets extra space moreinfo
450941 texlive-fonts-extra: cannot use mathtime/belleek
468225 pdfjam: pdfnup does not use /etc/papersize moreinfo
536380 HTML mode is spewing some XML
536393 HTML mode is specifing image sizes in points, in violation of HTML standard (and sanity)
537284 Ligature fi becoming ø in avant garde
550381 tex4ht: Creates invalid html document
554637 tex4ht: Leaves intermediate files wontfix
554998 Glitches when using hyperref and math mode
554999 tex4ht: mk4ht should fail when it encounters errors
572226 tex4ht: Incorrect output for align, eqnarray, inline longrightarrow
596703 texlive-publishers has dependencies on files texlive-bibtex-extra but doesn't even recommend it
604054 if hyperref is loaded before glossaries then text size is adapted wrongly
615596 tex4ht: mk4ht dblatex file.tex fails with xtpipes error fixed-upstream, patch, pending, upstream
635834 texlive-latex-extra: dependency problem: fancytooltips requires acrotex which is not packaged wontfix
637127 biblatex: Version 1.6-1 breaks "refsection=part" functionality
659772 landscape sciposter + hyperref + latex + dvips = center-mirrored image
670040 pdfannotextractor & pax do not work at all patch
675869 make PDF smaller with version1.4
683163 xmlto fail to convert example docbook to PDF (LaTeX Error, missing \item?)
697728 pdfjam: No --no-landscape with --nup possible
742276 pdfannotextractor & pax do not work at all patch
744309 FTBFS Please rebuilt from source flash file
764122 MnSymbol and new[tp]x shouldn't be in the texlive-fonts-extra ghetto
767872 tex4ht: htlatex fails without non-zero exit status
772378 texlive-latex-extra-doc: bashism in /bin/sh script
774942 texlive-latex-extra: package description has too many blank lines and is too long
792676 libpdfbox-java: fails to find org.pdfbox.cos.ICOSVisitor class patch
801505 texlive-latex-extra: complaint about weong file in dpkg trigger
807211 texlive-latex-extra: bug in cool.sty; dependency on texlive-fonts-extra
862966 texlive-fonts-extra: Missing yinitas.tfm which makes yfonts.sty unusable
866114 texlive-fonts-extra: Icon errors when installed alongside fonts-font-awesome moreinfo
877769 Q: files (.tex, .cls, Makefile, etc...) compressed to .gz (but seem should not)
877770 Q: Why -doc package depends on tex?
899413 texlive-latex-extra: beamerthemeAachen.sty is missing package tangocolors
916796 IEEEfull.bib: cannot be read in encoding 'utf8' by biber
917996 texlive-pstricks: gs gives undefined in --execute-- when using color.tex with pstricks on plain tex.
929558 texlive-fonts-extra: STIX2 fonts cannot called by their font names by xelatex & fontspec.sty
930850 texlive-latex-extra: Update listings macro separator
941823 tabu: cell background colours broken
953073 texlive-fonts-extra: TwemojiMozilla.ttf is included in 4 Debian packages
958562 texlive-extra-utils: missing man page for pdfcrop
974724 no useful documentation of pdfjam commands wontfix
992269 texlive-bibtex-extra: Missing beebe bst stiles like abstract.bst
997024 [greek]babel + cleveref + pagenumbering + label = ☇
1003255 (no subject)
1008808 texlive-games: [chess.sty] Incorrect usage of babel breaks package wontfix
1011759 texlive-extra-utils: Script pdfjoin has vanished
1012488 texlive-latex-extra: Using animate from latex-extra together with pictex from texlive-pictures gives fatal error
1013275 toil: FTBFS with Python 3.10 only ftbfs
980509 umap-learn: Binary package name should be python3-umap-learn pending
1002400 umap-learn: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.9 --system=custom "--test-args=PYTHONPATH={build_dir} {interpreter} -m pytest" returned exit code 13 bookworm, ftbfs, sid
1013058 uncalled: ftbfs with GCC-12 bookworm, sid
976511 vg: FTBFS on arm64: configure: error: Could not find a version of the library! bookworm, bullseye, ftbfs, sid
987184 vg -- excessive variants built, and not tested
1013061 vg: ftbfs with GCC-12 bookworm, sid
348845 please provide a male character as well upstream
359991 Please add 'daemon' mode
371826 new exercises upstream
388570 option for less disk intensity upstream
533294 Improve .desktop file: Office category fits better than Accesibility and german comment
545585 workrave: Cant resume after unlocking screen
598402 workrave: Should count suspend time as pauses
632232 workrave: Changing sound options has no effect
695344 Installs gobject-introspection / library files into system wide paths
783872 [workrave] xfce4 panel plugin uses the wrong path in desktop file
789044 workrave: lock was blocked by another application
804170 workrave: Workrave resets system volume levels
829450 workrave: Cannot interract with Workrave icon in KDE system tray
843563 Workrave applet unusable
853933 workrave: segfault when trying to start under wayland upstream
911054 workrave: desktop instability in multimonitor (3) setup
921765 workrave: occasionally runs into false activity detection
943477 workrave: multiple overlaying popups in multimonitor setup
967815 workrave: depends on deprecated GTK 2
980873 workrave: Break warning window grabs keyboard focus on Wayland
988064 workrave: applet does not display timer after screen lock

Open bugs in suggested packages

2 serious, 2 important
928076 bcbio: Workflows not ready for non-developers to depend on.
1012386 python-seqcluster: FTBFS: ModuleNotFoundError: No module named 'attr' ftbfs
1002223 simde: fails test with clang: error: cd clang_test && LC_ALL=C.UTF-8 MESON_TESTTHREADS=4 meson test returned exit code 6 bookworm, experimental, ftbfs, sid, upstream
1005713 tensorflow FTBFS; bazel still tries to download during build.

Done bugs

697073 dcmtk: dcmdjpeg fails to decode a lossless JPEG confirmed, upstream
718557 dcmtk: Missing transition in dcmqrscp upstream, wontfix
730610 C-STORE SCU not working with JPIP Transfer Syntax confirmed, upstream
748403 Conflicting declarations of jpeg_memory_mgr may lead to invalid function calls confirmed, fixed-upstream, patch, upstream
999887 dcmtk FTCBFS: uses TRY_RUN check for signedness of char fixed-upstream, upstream
1010536 cannot open shared object file: No such file or directory d-i, ftbfs
1010729 dcmtk: Default path to DICOM dictionaries is wrong
1010912 libdcmtk16 version 3.6.7-1: ldd blender shows missing .so files d-i, ftbfs
1012417 libdcmtk17: Fails to install; conflict with libdcmtk16: trying to overwrite '/usr/share/libdcmtk16/acrnema.dic', which is also in package libdcmtk16 3.6.6-5
1009383 gromacs: FTBFS: AttributeError: module 'collections' has no attribute 'Iterable' bookworm, experimental, ftbfs, sid
1011886 orthanc-dicomweb: FTBFS: make[1]: *** [debian/rules:37: override_dh_auto_configure] Error 2 bookworm, ftbfs, sid
1012224 python-tornado: autopkgtest regression in testing ftbfs
994423 pytorch: Baseline violation on armhf bookworm, bullseye, ftbfs, sid
1013030 rna-star: ftbfs with GCC-12 bookworm, sid
1008352 seqan3: FTBFS: type_traits.hpp:68:37: error: no match for call to ‘(const ranges::views::zip_fn) (std::ranges::single_view<std::tuple<std::vector<seqan3::dna4, std::allocator<seqan3::dna4> >&, std::vector<seqan3::dna4, std::allocator<seqan3::dna4> >&> >, std::ranges::iota_view<int, std::unreachable_sentinel_t>)’ bookworm, ftbfs, sid
1012257 libsnpeff-java-doc: Unnecessary dependency on libfreemarker-java-doc
1010788 spades: Mismatch correction / --careful mode broken by Debian patch
953072 texlive-fonts-extra: NotoColorEmoji.ttf is included in 3 Debian packages
987778 texlive-latex-extra: fails to declare dependency on libspreadsheet-parseexcel-perl
990494 texlive-latex-extra: missing dependency on texlive-science for invoice.sty
955965 workrave: Depends on deprecated dbus-glib bookworm, 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:
Last update: Sat, 25 Jun 2022 18:22:55 -0000