Question: Concatenate Fasta Tool Problem
gravatar for Paul McAdam
7.5 years ago by
Paul McAdam10
Paul McAdam10 wrote:
Hi, I'm trying to use the concatenate fasta tool at to concatenate an xmfa file output from mauve (headers formatted to following standard: >1:517-24215(+)|0402981.fa but am receiving the following error. Traceback (most recent call last): File "/galaxy/home/g2main/galaxy_main/tools/fasta_tools/fasta_concat", line 40, in if __name__ == "__main__" : __main__() File "/galaxy/home/g2main/galaxy_main/tools/fasta_tools/fasta_concat", line 23, in __main__ species[component.species] = tempfile.TemporaryFile() File "/usr/lib/python2.6/", line 475, in TemporaryFile (fd, name) = _mkstemp_inner(dir, prefix, suffix, flags) File "/usr/lib/python2.6/", line 228, in _mkstemp_inner fd =, flags, 0600) OSError: [Errno 24] Too many open files: '/space/g2main/tmpotY_hX' Does anyone have any ideas what the issue may be? Regards Paul -- Laboratory for Bacterial Evolution and Pathogenesis Centre for Infectious Diseases and The Roslin Institute University of Edinburgh Easter Bush Campus Midlothian EH25 9RG Tel: +44 (0)131 6519231 email:
galaxy • 1.2k views
ADD COMMENTlink modified 7.5 years ago by Jennifer Hillman Jackson25k • written 7.5 years ago by Paul McAdam10
gravatar for Jennifer Hillman Jackson
7.5 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Paul, As a double check that this was not a transient server problem (due to usage), please try a quick re-run. If the problem persists, would you have time to share your history containing the error? Please use "Options -> Share or Publish" and email the link back to me directly. We will provide feedback as soon as possible. Best, Jen Galaxy team -- Jennifer Jackson
ADD COMMENTlink written 7.5 years ago by Jennifer Hillman Jackson25k
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