Question: Concatenate Fasta Tool Problem
0
gravatar for Paul McAdam
6.6 years ago by
Paul McAdam10
Paul McAdam10 wrote:
Hi, I'm trying to use the concatenate fasta tool at http://main.g2.bx.psu.edu/root?tool_id=fasta_concatenate0 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 enate_by_species.py", line 40, in if __name__ == "__main__" : __main__() File "/galaxy/home/g2main/galaxy_main/tools/fasta_tools/fasta_concat enate_by_species.py", line 23, in __main__ species[component.species] = tempfile.TemporaryFile() File "/usr/lib/python2.6/tempfile.py", line 475, in TemporaryFile (fd, name) = _mkstemp_inner(dir, prefix, suffix, flags) File "/usr/lib/python2.6/tempfile.py", line 228, in _mkstemp_inner fd = _os.open(file, 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: p.mcadam@sms.ed.ac.uk
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ADD COMMENTlink modified 6.6 years ago by Jennifer Hillman Jackson23k • written 6.6 years ago by Paul McAdam10
0
gravatar for Jennifer Hillman Jackson
6.6 years ago by
United States
Jennifer Hillman Jackson23k 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 http://usegalaxy.org http://galaxyproject.org
ADD COMMENTlink written 6.6 years ago by Jennifer Hillman Jackson23k
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