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Covid-19 - Quality Assurance

Summary

Autoremovals: 40

Migration issues: 20

CI failures: 62

Install issues: 15

No issues: 120/231

This task exists only for tagging COVID-19 relevant cases

The Debian Med team intends to take part at the COVID-19 Biohackathon (April 5-11, 2020) This task was created only for the purpose to list relevant packages.

augur

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: texext
  • Bugs in dependencies leading to autoremoval: #1114405

Continuous integration (CI) tests are failing:

drmaa

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: gridengine
  • Bugs in dependencies leading to autoremoval: #1114138

Continuous integration (CI) tests are failing:

kallisto

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: python-ratelimiter
  • Bugs in dependencies leading to autoremoval: #1114325

Continuous integration (CI) tests are failing:

pinfish

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: racon spoa
  • Bugs in dependencies leading to autoremoval: #1097767 #1097922

Continuous integration (CI) tests are failing:

pytorch

😟 Autoremoval

😟 CI

Package marked for automatic removal:

Continuous integration (CI) tests are failing:

r-bioc-htsfilter

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-bioc-mutationalpatterns

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-bioc-pwmenrich

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-bioc-rcpi

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-bioc-rgsepd

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-bioc-tcgabiolinks

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-cran-shazam

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

r-cran-tigger

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are failing:

shovill

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: spades
  • Bugs in dependencies leading to autoremoval: #1097913

Continuous integration (CI) tests are failing:

snakemake

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: python-ratelimiter
  • Bugs in dependencies leading to autoremoval: #1114325

Continuous integration (CI) tests are failing:

toil

😟 Autoremoval

😟 CI

Package marked for automatic removal:

Continuous integration (CI) tests are failing:

unicycler

😟 Autoremoval

😟 CI

Package marked for automatic removal:

Continuous integration (CI) tests are failing:

wtdbg2

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1098113

Continuous integration (CI) tests are failing:

pigx-rnaseq

😟 Autoremoval

😟 Install/upgrade

😑 Tests missing

Package marked for automatic removal:

Piuparts failed:

Continuous integration (CI) tests are missing.

fasta3

😟 Autoremoval

😟 Install/upgrade

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1096607

Piuparts failed:

macromoleculebuilder

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Bugs leading to autoremoval: #1114196

Continuous integration (CI) tests are missing.

python-seqcluster

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: vienna-rna
  • Bugs in dependencies leading to autoremoval: #1114434

Continuous integration (CI) tests are missing.

r-other-ascat

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

Continuous integration (CI) tests are missing.

smrtanalysis

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: pbcopper
  • Bugs in dependencies leading to autoremoval: #1097555

Continuous integration (CI) tests are missing.

thesias

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1097993

Continuous integration (CI) tests are missing.

vienna-rna

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Bugs leading to autoremoval: #1114434
  • Will result in removal of python-seqcluster with total popcon score of 0

Continuous integration (CI) tests are missing.

abyss

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: libsdsl
  • Bugs in dependencies leading to autoremoval: #1097267

bbhash

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1096359

genometools

😟 Autoremoval

Package marked for automatic removal:

gubbins

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: iqtree
  • Bugs in dependencies leading to autoremoval: #1096850

lastz

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1097151

nanopolish

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-09-19
  • Bugs leading to autoremoval: #1097430

nthash

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: libsdsl
  • Bugs in dependencies leading to autoremoval: #1097267

python-questplus

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-19
  • Dependencies leading to autoremoval: lxml-html-clean
  • Bugs in dependencies leading to autoremoval: #1114193

r-bioc-rsamtools

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

r-cran-alakazam

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

r-cran-spp

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Dependencies leading to autoremoval: r-bioc-genomeinfodb
  • Bugs in dependencies leading to autoremoval: #1111759

salmon

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Bugs leading to autoremoval: #1097838
  • Dependencies leading to autoremoval: rapmap
  • Bugs in dependencies leading to autoremoval: #1097770
  • Will result in removal of pigx-rnaseq with total popcon score of 0

seqkit

😟 Autoremoval

Package marked for automatic removal:

spades

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-10-04
  • Bugs leading to autoremoval: #1097913
  • Will result in removal of ariba shovill unicycler with total popcon score of 0

python-cogent

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 612 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest, depends

Piuparts failed:

vg

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 1109 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

Piuparts failed:

bcbio

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 560 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Migrates after: mosdepth, umis

nanook

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 167 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

pychopper

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 560 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

python-anndata

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 579 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: python-awkward

q2-cutadapt

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 387 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: q2-types, qiime

q2-feature-table

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 387 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: q2-types, qiime

q2-quality-filter

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 387 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: q2-types, qiime

readucks

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 560 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

sepp

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 981 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: build-depends, depends
  • Invalidated by another package
  • Blocked by: pplacer

umap-learn

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 612 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

python-etelemetry

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

fastani

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

gromacs

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

tipp

😟 Migration

😑 Tests missing

Migration from unstable to testing is blocked:

  • Not in testing for 981 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: build-depends, depends
  • Invalidated by another package
  • Blocked by: sepp

Continuous integration (CI) tests are missing.

orthanc

😟 Migration

Migration from unstable to testing is blocked:

  • Has been trying to migrate for 30 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

orthanc-dicomweb

😟 Migration

Migration from unstable to testing is blocked:

  • Has been trying to migrate for 30 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: built-using
  • Invalidated by another package
  • Blocked by: orthanc

orthanc-python

😟 Migration

Migration from unstable to testing is blocked:

  • Has been trying to migrate for 30 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: build-depends, built-using, depends
  • Invalidated by another package
  • Blocked by: orthanc

pplacer

😟 Migration

Migration from unstable to testing is blocked:

  • Not in testing for 981 days.
  • Verdict: Rejected/violates migration policy/introduces a regression

r-cran-sjplot

😟 Migration

Migration from unstable to testing is blocked:

  • Not in testing for 447 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: build-depends, depends
  • Invalidated by another package
  • Blocked by: r-cran-sjstats

umis

😟 Migration

Migration from unstable to testing is blocked:

  • Not in testing for 257 days.
  • Verdict: Rejected/violates migration policy/introduces a regression

bowtie2

😟 CI

Continuous integration (CI) tests are failing:

centrifuge

😟 CI

Continuous integration (CI) tests are failing:

drop-seq

😟 CI

Continuous integration (CI) tests are failing:

fastqc

😟 CI

Continuous integration (CI) tests are failing:

gnumed-client

😟 CI

Continuous integration (CI) tests are failing:

htseq

😟 CI

Continuous integration (CI) tests are failing:

imagej

😟 CI

Continuous integration (CI) tests are failing:

ivar

😟 CI

Continuous integration (CI) tests are failing:

lighter

😟 CI

Continuous integration (CI) tests are failing:

mmseqs2

😟 CI

Continuous integration (CI) tests are failing:

muscle

😟 CI

Continuous integration (CI) tests are failing:

nanosv

😟 CI

Continuous integration (CI) tests are failing:

odil

😟 CI

Continuous integration (CI) tests are failing:

picard-tools

😟 CI

Continuous integration (CI) tests are failing:

porechop

😟 CI

Continuous integration (CI) tests are failing:

prokka

😟 CI

Continuous integration (CI) tests are failing:

pydicom

😟 CI

Continuous integration (CI) tests are failing:

pynn

😟 CI

Continuous integration (CI) tests are failing:

python-cgecore

😟 CI

Continuous integration (CI) tests are failing:

python-cooler

😟 CI

Continuous integration (CI) tests are failing:

python-pbcore

😟 CI

Continuous integration (CI) tests are failing:

seqan3

😟 CI

Continuous integration (CI) tests are failing:

snpeff

😟 CI

Continuous integration (CI) tests are failing:

snpsift

😟 CI

Continuous integration (CI) tests are failing:

spaln

😟 CI

Continuous integration (CI) tests are failing:

stringtie

😟 CI

Continuous integration (CI) tests are failing:

sumaclust

😟 CI

Continuous integration (CI) tests are failing:

vsearch

😟 CI

Continuous integration (CI) tests are failing:

yanosim

😟 CI

Continuous integration (CI) tests are failing:

node-shiny-server

😟 Install/upgrade

😑 Tests missing

Piuparts failed:

Continuous integration (CI) tests are missing.

texlive-extra

😟 Install/upgrade

😑 Tests missing

Piuparts failed:

Continuous integration (CI) tests are missing.

bcalm

😟 Install/upgrade

Piuparts failed:

minia

😟 Install/upgrade

Piuparts failed:

plip

😟 Install/upgrade

Piuparts failed:

presto

😟 Install/upgrade

Piuparts failed:

python-pysam

😟 Install/upgrade

Piuparts failed:

rna-star

😟 Install/upgrade

Piuparts failed:

tombo

😟 Install/upgrade

Piuparts failed:

dextractor

😑 Tests missing

Continuous integration (CI) tests are missing.

gnumed-server

😑 Tests missing

Continuous integration (CI) tests are missing.

htscodecs

😑 Tests missing

Continuous integration (CI) tests are missing.

libchipcard

😑 Tests missing

Continuous integration (CI) tests are missing.

libics

😑 Tests missing

Continuous integration (CI) tests are missing.

libmaus2

😑 Tests missing

Continuous integration (CI) tests are missing.

milib

😑 Tests missing

Continuous integration (CI) tests are missing.

plasmidid

😑 Tests missing

Continuous integration (CI) tests are missing.

tophat-recondition

😑 Tests missing

Continuous integration (CI) tests are missing.

varscan

😑 Tests missing

Continuous integration (CI) tests are missing.

workrave

😑 Tests missing

Continuous integration (CI) tests are missing.