Your message dated Wed, 13 Jan 2021 10:18:34 +0000
with message-id <[email protected]>
and subject line Bug#980005: fixed in lumpy-sv 0.3.1+dfsg-5
has caused the Debian Bug report #980005,
regarding lumpy-sv: lumpyexpress fails with no args
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
980005: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=980005
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: lumpy-sv
Version: 0.3.1+dfsg-4
Severity: important
X-Debbugs-Cc: [email protected]
Dear Maintainer,
I built a lumpy-sv Docker image with the attached Dockerfile. Running a
container for the image produces the following error:
Sourcing executables from /etc/lumpy-sv/lumpyexpress.config ...
Checking for required python modules (/usr/bin/python3)...
Traceback (most recent call last):
File "<string>", line 1, in <module>
AttributeError: module 'importlib' has no attribute 'util'
Thanks,
Ken
-- System Information:
Debian Release: bullseye/sid
APT prefers testing
APT policy: (500, 'testing')
Architecture: amd64 (x86_64)
Kernel: Linux 4.19.0-13-amd64 (SMP w/4 CPU threads)
Kernel taint flags: TAINT_WARN
Locale: LANG=C, LC_CTYPE=C.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /bin/dash
Init: unable to detect
Versions of packages lumpy-sv depends on:
ii bamkit 0.0.1+git20170413.ccd079d-2
ii libbamtools2.5.1 2.5.1+dfsg-7+b1
ii libc6 2.31-9
ii libgcc-s1 10.2.1-3
ii libgzstream0 1.5+dfsg-5
ii libhts3 1.11-4
ii libstdc++6 10.2.1-3
ii python3 3.9.1-1
ii python3-numpy 1:1.19.4-1+b1
ii python3-pysam 0.15.4+ds-3+b2
ii samblaster 0.1.26-1
ii samtools 1.11-1
Versions of packages lumpy-sv recommends:
pn sambamba <none>
lumpy-sv suggests no packages.
-- no debconf information
FROM debian:bullseye-slim
RUN apt-get update && \
apt-get -y --no-install-recommends full-upgrade && \
apt-get -y --no-install-recommends install \
lumpy-sv \
&& \
rm -rf /var/lib/apt/lists/*
RUN useradd -ms /bin/bash lumpy
USER lumpy
WORKDIR /home/lumpy
CMD ["lumpyexpress"]
--- End Message ---
--- Begin Message ---
Source: lumpy-sv
Source-Version: 0.3.1+dfsg-5
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
lumpy-sv, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated lumpy-sv package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Wed, 13 Jan 2021 10:34:36 +0100
Source: lumpy-sv
Architecture: source
Version: 0.3.1+dfsg-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 980005
Changes:
lumpy-sv (0.3.1+dfsg-5) unstable; urgency=medium
.
* Fix configure patch according to a hint of Ken Yamaguchi
Closes: #980005
* Standards-Version: 4.5.1 (routine-update)
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