Path: csiph.com!goblin2!goblin1!goblin.stu.neva.ru!news2.arglkargh.de!news.mixmin.net!aioe.org!bofh.it!news.nic.it!robomod From: Andreas Tille Newsgroups: linux.debian.maint.python,linux.debian.bugs.dist Subject: Test failures with pyfasta Date: Wed, 14 Oct 2015 23:00:03 +0200 Message-ID: X-Original-To: Brent Pedersen X-Mailbox-Line: From debian-python-request@lists.debian.org Wed Oct 14 20:54:55 2015 Old-Return-Path: X-Amavis-Spam-Status: No, score=-6.91 tagged_above=-10000 required=5.3 tests=[BAYES_00=-2, FOURLA=0.1, LDO_WHITELIST=-5, T_RP_MATCHES_RCVD=-0.01] autolearn=ham autolearn_force=no X-Policyd-Weight: using cached result; rate: -6.1 MIME-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Disposition: inline Content-Transfer-Encoding: 8bit User-Agent: Mutt/1.5.23 (2014-03-12) X-Mailing-List: archive/latest/12980 List-ID: List-URL: List-Archive: https://lists.debian.org/msgid-search/20151014205300.GB856@an3as.eu Approved: robomod@news.nic.it Lines: 50 Organization: linux.* mail to news gateway Sender: robomod@news.nic.it X-Original-Cc: debian-python@lists.debian.org, 801721@bugs.debian.org X-Original-Date: Wed, 14 Oct 2015 22:53:00 +0200 X-Original-Message-ID: <20151014205300.GB856@an3as.eu> Xref: csiph.com linux.debian.maint.python:7669 linux.debian.bugs.dist:687013 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