[Debian-med-packaging] Bug#996469: qiime: Test errors with python3-decorator 5

Gordon Ball gordon at chronitis.net
Thu Oct 14 12:38:57 BST 2021


Package: qiime
Severity: normal
Tags: upstream
X-Debbugs-Cc: gordon at chronitis.net

I recently uploaded python-decorator 5.1 to experimental. This appears
to break qiime (or qiime's test suite, at least).

https://ci.debian.net/data/autopkgtest/unstable/amd64/q/qiime/15900873/log.gz

This appears to be consistent with `ci/recipe/meta.yaml`
(decorator >=4,<5).

Is it possible to patch this for compatibility? The test outputs _look_
cosmetic (although might hide something deeper).

-- System Information:
Debian Release: bookworm/sid
  APT prefers unstable
  APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 5.14.0-2-amd64 (SMP w/1 CPU thread)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8), LANGUAGE=en_GB
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled

Versions of packages qiime depends on:
ii  python3               3.9.2-3
pn  python3-bibtexparser  <none>
ii  python3-dateutil      2.8.1-6
ii  python3-decorator     4.4.2-2
pn  python3-dill          <none>
ii  python3-networkx      2.5+ds-2
ii  python3-pandas        1.1.5+dfsg-2
ii  python3-pyparsing     2.4.7-1
ii  python3-tzlocal       2.1-1
ii  python3-yaml          5.4.1-1

Versions of packages qiime recommends:
pn  q2-cutadapt            <none>
pn  q2-demux               <none>
pn  q2-feature-classifier  <none>
pn  q2-feature-table       <none>
pn  q2-metadata            <none>
pn  q2-quality-filter      <none>
pn  q2-types               <none>
pn  q2cli                  <none>
pn  q2templates            <none>

qiime suggests no packages.



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