GNU bug report logs - #33032
[PATCH] gnu: update python-biopython to 1.72

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Package: guix-patches;

Reported by: Brett Gilio <brettg <at> posteo.net>

Date: Sat, 13 Oct 2018 03:51:02 UTC

Severity: normal

Tags: moreinfo, patch

Done: zimoun <zimon.toutoune <at> gmail.com>

Bug is archived. No further changes may be made.

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From: Andreas Enge <andreas <at> enge.fr>
To: 33032 <at> debbugs.gnu.org
Subject: [bug#33032] Update
Date: Sat, 5 Sep 2020 22:36:39 +0200

Hello,

I just updated seqmagick to 0.8.0.

Then I tried to update python-biopython to the latest version, 1.78. With it,
seqmagick fails to compile with the following message:

mportError: cannot import name 'triefind' from 'Bio' (/gnu/store/9cr6885z39yb5x3pbanva5h9nacmlkvz-python-biopython-1.78/lib/python3.8/site-packages/Bio/__init__.py)

======================================================================
ERROR: Failure: ImportError (Bio.Alphabet has been removed from Biopython. In many cases, the alphabet can simply be ignored and removed from scripts. In a few cases, you may need to specify the ``molecule_type`` as an annotation on a SeqRecord for your script to work correctly. Please see https://biopython.org/wiki/Alphabet for more information.)


Andreas
This bug report was last modified 3 years and 41 days ago.

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