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Test failures with pyfasta

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From	Andreas Tille <andreas@an3as.eu>
Newsgroups	linux.debian.maint.python, linux.debian.bugs.dist
Subject	Test failures with pyfasta
Date	Wed, 14 Oct 2015 23:00:03 +0200
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X-Original-To	Brent Pedersen <bpederse@gmail.com>
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Hi Brent,

I intend to package pyfasta for the Debian distribution.  I tried to also
run the unit tests:


$ LC_ALL=C python setup.py nosetests
running nosetests
running egg_info
writing pyfasta.egg-info/PKG-INFO
writing top-level names to pyfasta.egg-info/top_level.txt
writing dependency_links to pyfasta.egg-info/dependency_links.txt
writing entry points to pyfasta.egg-info/entry_points.txt
reading manifest file 'pyfasta.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
writing manifest file 'pyfasta.egg-info/SOURCES.txt'
FF..creating new files:
some.split.fasta
creating new files:
some.0.fasta
some.1.fasta
creating new files:
some.0
some.1
creating new files:
some.0.1Kmer.fasta
some.1.1Kmer.fasta
creating new files:
some.0.10Kmer.2Koverlap.fasta
some.1.10Kmer.2Koverlap.fasta
creating new files:
some.split.100Kmer.2Koverlap.fasta
...................................................Getötet



The dots '.' come quite fast and than the output stops.  After several
minutes (>10min) the computer slows down all processes and finally the
kernel seems to kill the process (Getötet == killed).  Seems there is
some infinite loop somewhere or so.

Do you have any idea how to debug this issue or what information should
be provided to track down the issue?

Kind regards

       Andreas.

-- 
http://fam-tille.de

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Test failures with pyfasta Andreas Tille <andreas@an3as.eu> - 2015-10-14 23:00 +0200

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