[Bioperl-guts-l] [Bug 3163] AssemblyIO takes too long (especially 454)

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Sun Jan 9 22:54:09 EST 2011


http://bugzilla.open-bio.org/show_bug.cgi?id=3163





------- Comment #7 from florent.angly at gmail.com  2011-01-09 22:54 EST -------
Hi Lee,

Unfortunately, I cannot reproduce the bug with the file you attached. It is
simply too short and can be processed very rapidly. Could you try attaching
your entire file again, after compressing it? That should dramatically reduce
its size.

In addition, could you run the attached script on your data? This will tell us
if there is a specific contig that is problematic (e.g. a contig with many).

Thanks


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