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Covid-19 - Quality Assurance

Summary

Autoremovals: 22

Migration issues: 23

CI failures: 68

Install issues: 72

No issues: 88/231

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.

r-cran-epir

😟 Autoremoval

😟 CI

😟 Install/upgrade

Package marked for automatic removal:

  • Will be removed on: 2025-01-22
  • Dependencies leading to autoremoval: r-cran-sf
  • Bugs in dependencies leading to autoremoval: #1071106

Continuous integration (CI) tests are failing:

Piuparts failed:

r-cran-sf

😟 Autoremoval

😟 CI

😟 Install/upgrade

Package marked for automatic removal:

Continuous integration (CI) tests are failing:

Piuparts failed:

augur

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: python-pygtrie
  • Bugs in dependencies leading to autoremoval: #1090157

Continuous integration (CI) tests are failing:

kallisto

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: nose2
  • Bugs in dependencies leading to autoremoval: #1090249

Continuous integration (CI) tests are failing:

r-bioc-htsfilter

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are failing:

r-bioc-mutationalpatterns

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are failing:

r-bioc-rsamtools

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are failing:

r-bioc-tcgabiolinks

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are failing:

r-cran-shazam

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are failing:

r-cran-tigger

😟 Autoremoval

😟 CI

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

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.

snakemake

😟 Autoremoval

😟 Install/upgrade

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: nose2
  • Bugs in dependencies leading to autoremoval: #1090249

Piuparts failed:

  • Version: 3.9.0+dfsg-2~bpo8+1
  • Sections: jessie2bpo

umis

😟 Autoremoval

😟 Install/upgrade

Package marked for automatic removal:

  • Will be removed on: 2025-01-03
  • Bugs leading to autoremoval: #1089115

Piuparts failed:

python-seqcluster

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

Continuous integration (CI) tests are missing.

r-other-ascat

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

Continuous integration (CI) tests are missing.

smrtanalysis

😟 Autoremoval

😑 Tests missing

Package marked for automatic removal:

  • Will be removed on: 2025-01-09
  • Dependencies leading to autoremoval: blasr
  • Bugs in dependencies leading to autoremoval: #1067374

Continuous integration (CI) tests are missing.

python-gffutils

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: python-pybedtools
  • Bugs in dependencies leading to autoremoval: #1090283

python-pybedtools

😟 Autoremoval

Package marked for automatic removal:

r-cran-alakazam

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

r-cran-spp

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-01-19
  • Dependencies leading to autoremoval: r-bioc-genomicranges
  • Bugs in dependencies leading to autoremoval: #1088612

seqmagick

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: python-pygtrie
  • Bugs in dependencies leading to autoremoval: #1090157

tombo

😟 Autoremoval

Package marked for automatic removal:

  • Will be removed on: 2025-01-29
  • Dependencies leading to autoremoval: nose2
  • Bugs in dependencies leading to autoremoval: #1090249

drmaa

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 124 days.
  • Verdict: Cannot migrate due to another item, which is blocked (please check which dependencies are stuck)
  • Reason: depends
  • Invalidated by another package
  • Blocked by: gridengine

Piuparts failed:

pynn

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 193 days.
  • Verdict: Rejected/violates migration policy/introduces a regression

Piuparts failed:

python-cogent

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 346 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest, missingbuild
  • Migrates after: numba

Piuparts failed:

r-cran-sjplot

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 181 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: r-cran-bayestestr, r-cran-parameters, r-cran-performance, r-cran-sjstats

Piuparts failed:

vg

😟 CI

😟 Migration

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 843 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 294 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Migrates after: freebayes, hts-nim-tools, mosdepth

pplacer

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 715 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 294 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 313 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: python-array-api-compat

q2-cutadapt

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 121 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 121 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 121 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: q2-types, qiime

r-bioc-rgsepd

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 20 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-bioc-goseq

readucks

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 294 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 715 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

sumaclust

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 139 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest
  • Migrates after: sumalibs

toil

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 163 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

umap-learn

😟 CI

😟 Migration

Continuous integration (CI) tests are failing:

Migration from unstable to testing is blocked:

  • Not in testing for 346 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Migrates after: numba, python-pynndescent

freebayes

😟 Migration

😟 Install/upgrade

Migration from unstable to testing is blocked:

  • Not in testing for 245 days.
  • Verdict: Rejected/violates migration policy/introduces a regression

Piuparts failed:

bowtie2

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

fastani

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

fastqc

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

  • Version: 0.11.5+dfsg-6~bpo8+1
  • Sections: jessie2bpo

gnumed-client

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

gromacs

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

htseq

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

imagej

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

muscle

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

picard-tools

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

pydicom

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

python-pbcore

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

  • Version: 1.2.7+dfsg-2~bpo8+1
  • Sections: jessie2bpo

r-bioc-limma

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

unicycler

😟 CI

😟 Install/upgrade

Continuous integration (CI) tests are failing:

Piuparts failed:

vsearch

😟 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 715 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.

pytorch

😟 Migration

Migration from unstable to testing is blocked:

  • Not in testing for 347 days.
  • Verdict: Rejected/violates migration policy/introduces a regression
  • Reason: autopkgtest

r-cran-kernelheaping

😟 Migration

Migration from unstable to testing is blocked:

  • Not in testing for 178 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-sparr

centrifuge

😟 CI

Continuous integration (CI) tests are failing:

drop-seq

😟 CI

Continuous integration (CI) tests are failing:

gffread

😟 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:

nanosv

😟 CI

Continuous integration (CI) tests are failing:

nthash

😟 CI

Continuous integration (CI) tests are failing:

odil

😟 CI

Continuous integration (CI) tests are failing:

orthanc-python

😟 CI

Continuous integration (CI) tests are failing:

pinfish

😟 CI

Continuous integration (CI) tests are failing:

porechop

😟 CI

Continuous integration (CI) tests are failing:

prokka

😟 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-etelemetry

😟 CI

Continuous integration (CI) tests are failing:

r-bioc-pwmenrich

😟 CI

Continuous integration (CI) tests are failing:

r-bioc-rcpi

😟 CI

Continuous integration (CI) tests are failing:

seqan3

😟 CI

Continuous integration (CI) tests are failing:

shovill

😟 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:

wtdbg2

😟 CI

Continuous integration (CI) tests are failing:

yanosim

😟 CI

Continuous integration (CI) tests are failing:

pairtools

😟 Migration

Migration from unstable to testing is blocked:

  • 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: python-deadlib

gnumed-server

😟 Install/upgrade

😑 Tests missing

Piuparts failed:

Continuous integration (CI) tests are missing.

libchipcard

😟 Install/upgrade

😑 Tests missing

Piuparts failed:

Continuous integration (CI) tests are missing.

libics

😟 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.

workrave

😟 Install/upgrade

😑 Tests missing

Piuparts failed:

Continuous integration (CI) tests are missing.

abacas

😟 Install/upgrade

Piuparts failed:

abyss

😟 Install/upgrade

Piuparts failed:

bcftools

😟 Install/upgrade

Piuparts failed:

bedtools

😟 Install/upgrade

Piuparts failed:

bwa

😟 Install/upgrade

Piuparts failed:

cwltool

😟 Install/upgrade

Piuparts failed:

  • Version: 1.0.20170114120503-1~bpo8+1
  • Sections: jessie2bpo

dcmtk

😟 Install/upgrade

Piuparts failed:

diamond-aligner

😟 Install/upgrade

Piuparts failed:

discosnp

😟 Install/upgrade

Piuparts failed:

gdcm

😟 Install/upgrade

Piuparts failed:

genometools

😟 Install/upgrade

Piuparts failed:

gubbins

😟 Install/upgrade

Piuparts failed:

kalign

😟 Install/upgrade

Piuparts failed:

minia

😟 Install/upgrade

Piuparts failed:

minimap2

😟 Install/upgrade

Piuparts failed:

nanook

😟 Install/upgrade

Piuparts failed:

nanopolish

😟 Install/upgrade

Piuparts failed:

ncbi-blast+

😟 Install/upgrade

Piuparts failed:

orthanc

😟 Install/upgrade

Piuparts failed:

orthanc-wsi

😟 Install/upgrade

Piuparts failed:

poretools

😟 Install/upgrade

Piuparts failed:

proteinortho

😟 Install/upgrade

Piuparts failed:

  • Version: 5.15+dfsg-1~bpo8+1
  • Sections: jessie2bpo

python-biopython

😟 Install/upgrade

Piuparts failed:

  • Version: 1.68+dfsg-3~bpo8+1
  • Sections: jessie2bpo

python-cutadapt

😟 Install/upgrade

Piuparts failed:

python-pyfaidx

😟 Install/upgrade

Piuparts failed:

python-pysam

😟 Install/upgrade

Piuparts failed:

  • Version: 0.9.1.4+ds-1~bpo8+1
  • Sections: jessie2bpo

python-pyvcf

😟 Install/upgrade

Piuparts failed:

python-tornado

😟 Install/upgrade

Piuparts failed:

r-cran-diagnosismed

😟 Install/upgrade

Piuparts failed:

r-cran-epi

😟 Install/upgrade

Piuparts failed:

r-cran-epibasix

😟 Install/upgrade

Piuparts failed:

r-cran-epicalc

😟 Install/upgrade

Piuparts failed:

r-cran-epitools

😟 Install/upgrade

Piuparts failed:

r-cran-hms

😟 Install/upgrade

Piuparts failed:

r-cran-stringi

😟 Install/upgrade

Piuparts failed:

rna-star

😟 Install/upgrade

Piuparts failed:

ruby-bio

😟 Install/upgrade

Piuparts failed:

samtools

😟 Install/upgrade

Piuparts failed:

spades

😟 Install/upgrade

Piuparts failed:

  • Version: 3.9.0+dfsg-1~bpo8+1
  • Sections: jessie2bpo

staden-io-lib

😟 Install/upgrade

Piuparts failed:

tiddit

😟 Install/upgrade

Piuparts failed:

tnseq-transit

😟 Install/upgrade

Piuparts failed:

dextractor

😑 Tests missing

Continuous integration (CI) tests are missing.

htscodecs

😑 Tests missing

Continuous integration (CI) tests are missing.

libmaus2

😑 Tests missing

Continuous integration (CI) tests are missing.

macromoleculebuilder

😑 Tests missing

Continuous integration (CI) tests are missing.

milib

😑 Tests missing

Continuous integration (CI) tests are missing.

node-shiny-server

😑 Tests missing

Continuous integration (CI) tests are missing.

plasmidid

😑 Tests missing

Continuous integration (CI) tests are missing.

thesias

😑 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.

vienna-rna

😑 Tests missing

Continuous integration (CI) tests are missing.