Debian Med Project
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Bugs of task covid-19
Total bugs: 180
Open bugs: 136
Fixed bugs: 44
Links to other tasks
Biology 128 (1166)
Phylogeny 2 (12)
Cloud 24 (261)
Covid-19 136 (1317)
Medical data 0 (0)
Dental 0 (0)
Epidemiology 7 (138)
Imaging 209 (992)
Laboratory 1 (9)
Oncology 1 (30)
Pharmacology 1 (9)
Physics 27 (210)
Practice 3 (27)
Psychology 4 (48)
Research 0 (0)
Statistics 0 (0)
Tools 32 (227)
Typesetting 68 (550)
critical 0 0
grave 1 0
serious 7 1
important 30 1
normal 64 0
minor 12 0
wishlist 19 1

Summary bugs page of task Covid-19

Immediately looking into bugs of the dependencies of this task is advised (1317)*

Open bugs in dependent packages

1 grave, 7 serious, 30 important, 64 normal, 12 minor, 19 wishlist
920282 abyss fails to build on hurd - googletest EXPECT_DEATH
1000577 abyss: autopkgtest regression on armhf and i386: Floating point exception upstream
819617 FTBFS: any-i386 - floating point idiosyncracies bullseye, buster, ftbfs, sid, stretch
860682 bcftools: FTBFS on i386: Test failures bullseye, buster, ftbfs, sid, stretch
860704 python-pysam: FTBFS on i386: build-dependency not installable: bcftools (>= 1.3.1) bullseye, buster, ftbfs, sid, stretch
870060 bcftools FTBFS on big endian: 107 tests failed ftbfs, upstream
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
935879 Update to use CharLS 2.0 upstream
987972 dcmtk user/group
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
999887 dcmtk FTCBFS: uses TRY_RUN check for signedness of char fixed-upstream, upstream
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
644397 Provide runtime detection for CPU SIMD capabilities upstream
983942 gromacs: ftbfs with -march=x86-64-v3
762353 libaqbanking-data: Missing sentence to translate l10n
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
1000782 plink2: autopkgtest regression: Segmentation fault
965361 python-cooler: please make the build reproducible patch, pending
979625 autopkgtest: ModuleNotFoundError (ipytree) and AssertionError
1000814 python-cooler: 10 test failures with pandas 1.3: TypeError: 'IOHandles' object is not subscriptable
860158 python-pbcore: prints warnings with recent h5py on ppc64el
919052 python-pbcore: some docs for pbcore are not found
995259 python-pybedtools: please make the build reproducible fixed-upstream, patch
987289 python-bz2file: no longer useful since Python 3.3
998854 undefined symbol: _PyUnicode_DecodeUnicodeEscape bookworm, fixed-upstream, sid, upstream, wontfix
983517 pytorch: Build documentation
994423 pytorch: Baseline violation on armhf bookworm, ftbfs, pending, sid
995360 pytorch: autopkgtest regression: fft: ATen not compiled with MKL support
997931 libtorch-dev: Caffe2Targets.cmake is broken
983749 The autopkgtest test depends are not available on s390x
970404 shovill: Please provide autopkgtest
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
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
947064 texlive-fonts-extra: fourier-orns.sty broken, docs using the Fourier font no longer compile
953072 texlive-fonts-extra: NotoColorEmoji.ttf is included in 3 Debian packages
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
987778 texlive-latex-extra: fails to declare dependency on libspreadsheet-parseexcel-perl
990360 texlive-publishers: update revtex to v4.2 fixed-upstream
990494 texlive-latex-extra: missing dependency on texlive-science for invoice.sty
992269 texlive-bibtex-extra: Missing beebe bst stiles like abstract.bst
997024 [greek]babel + cleveref + pagenumbering + label = ☇
980509 umap-learn: Binary package name should be python3-umap-learn pending
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
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
783845 workrave: Pulls in a lot of libraries from xfce4
783872 [workrave] xfce4 panel plugin uses the wrong path in desktop file
789044 workrave: lock was blocked by another application
802511 Please split off gnome-shell extension into separate package with proper dependencies
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
955965 workrave: Depends on deprecated dbus-glib bookworm, bullseye, sid
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

1 serious, 1 important, 1 wishlist
928076 bcbio: Workflows not ready for non-developers to depend on.
1001020 python-anndata: FTBFS with sklearn 1.0.1-1: ModuleNotFoundError: No module named 'sklearn.utils.testing' bookworm, sid
993623 python-seqcluster: Switch to myst-parser instead of recommonmark

Done bugs

986203 bustools: Please provide autopkgtest newcomer
999556 cwltool is missing the dependency on python3-distutils
1000317 cyvcf2: FTBFS with Python 3.10 ftbfs, patch
637687 libdcmtk2-dev: Dcmtk headers cause compile failure upstream
675448 dcmtk: dcmdjpeg does not set (0028, 2114) LossyImageCompressionMethod when decompressing lossy compressed DICOM file confirmed, fixed-upstream, upstream
714943 getscu stops working with dcmtk 3.6.0 upstream, wontfix
715029 DICOM upper layer FSM bug confirmed, fixed-upstream, patch, upstream
724886 IHE Radiology Technical Framework, Volume 2 (RAD TF-2) upstream, wontfix
731433 iteration 9396u invokes undefined behavior [-Waggressive-loop-optimizations] upstream
810926 dcmtk-www: missing file name extension of /etc/apache2/conf-available/dcmtk wontfix
859202 warning: 'int readdir_r(DIR*, dirent*, dirent**)' is deprecated fixed-upstream
900196 dcmtk: wrongly assumes that CMAKE_SYSTEM_VERSION to be non-empty patch, upstream
981326 dcmtk 3.6.6 has been released
988417 dcmtk: Memory leak in OFCharacterEncoding::selectEncoding
993025 dcm2xml.dtd>dumppat.txt are not installed
1000220 dicomscope: error: cannot bind non-const lvalue reference of type ‘std::__cxx11::list<int, std::allocator<int> >::const_iterator&’ to an rvalue of type ‘std::__cxx11::list<int, std::allocator<int> >::const_iterator’ bookworm, ftbfs, patch, sid, upstream
998143 gatb-core breaks discosnp autopkgtest: Segmentation fault bookworm, sid
1000413 discosnp: autopkgtest regression: Segmentation fault
939670 gdcm-doc: depends on cruft package. bullseye, sid
1000221 ginkgocadx: error: ‘OFIterator’ was not declared in this scope; did you mean ‘OF_error’? bookworm, ftbfs, sid, wontfix
921784 gromacs: unhelpful error message from mpicxx.openmpi unreproducible
997067 gromacs: FTBFS: ! LaTeX Error: File `tgtermes.sty' not found. bookworm, ftbfs, sid
997884 libgclib breaks cdbfasta autopkgtest: ABI breakage? bookworm, confirmed, sid
998420 minia: reproducible builds: Embeds kernel version patch
996559 minimap2 FTBFS on !x86 ftbfs
1000358 ncbi-blast+: Please remove the mbedtls version check
999841 odil: needlessly overrides d-shlibs for libboost_log
1000222 orthanc: DCMTK was configured to use C++14 features, but your compiler does not or was not configured to provide them. bookworm, confirmed, ftbfs, patch, sid, upstream
981753 COPY cannot find "/usr/share/nodejs/axios/dist/axios.min.js" patch, wontfix
1000337 pairtools: FTBFS with Python 3.10 patch, upstream
989328 libpicard-java-doc: broken symlink: /usr/share/doc/libpicard-java/api/jquery/external/jquery/jquery.js -> ../../../../../../javascript/jquery/jquery.min.js
989961 picard-tools: Wrong classpath in PicardCommandLine patch
1000423 python-biom-format: FTBFS with Python 3.10 - Test failures ftbfs, upstream
1000359 FTBFS: test failure: External MBEDTLS version mismatch
995258 python-pairix: please make the build reproducible patch
999381 python-pairix ftbfs with Python 3.10 (test failures) ftbfs, patch
949974 Finish hangs after flush
988772 python-tornado-doc: broken symlink: /usr/share/doc/python-tornado/rst -> html/_sources
1000287 python-tornado FTBFS with Python 3.10 bookworm, ftbfs, sid
999396 python3-typed-ast ftbfs with Python 3.10 (and 3.9.8) ftbfs
984304 pytorch: ftbfs with GCC-11 bookworm, ftbfs, sid
996138 ruby-bio: FTBFS with ruby3.0: ERROR: Test "ruby3.0" failed: Error: test_target(Bio::TestSiRNAPair): NoMethodError: undefined method `subseq' for "cuuucggugcggacguaaggagu":String bookworm, ftbfs, sid
996280 seqan3: autopkgtest needs update for new version of gcc-defaults bookworm, sid
997000 snakemake: please make the build reproducible patch
*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, 07 Dec 2021 01:45:46 -0000