[Debian-med-packaging] Bug#962944: python3-biopython needs Breaks: cnvkit (<< 0.9.7-1~)

Adrian Bunk bunk at debian.org
Tue Jun 16 12:40:46 BST 2020


Package: python3-biopython
Version: 1.77+dfsg-1
Severity: serious
Control: block 959587 by -1

https://ci.debian.net/data/autopkgtest/testing/amd64/c/cnvkit/5912015/log.gz

...
Unpacking python3-biopython (1.77+dfsg-1) ...
...
Unpacking cnvkit (0.9.6-3) ...
...
Traceback (most recent call last):
  File "/usr/bin/cnvkit", line 8, in <module>
    from cnvlib import commands
  File "/usr/lib/python3/dist-packages/cnvlib/__init__.py", line 5, in <module>
    from .commands import *
  File "/usr/lib/python3/dist-packages/cnvlib/commands.py", line 32, in <module>
    from . import (access, antitarget, autobin, batch, call, core, coverage,
  File "/usr/lib/python3/dist-packages/cnvlib/autobin.py", line 11, in <module>
    from . import coverage, samutil
  File "/usr/lib/python3/dist-packages/cnvlib/coverage.py", line 15, in <module>
    from Bio._py3k import StringIO
ModuleNotFoundError: No module named 'Bio._py3k'
make: *** [Makefile:51: build/reference-picard.cnn] Error 1



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