[Bioperl-l] Bio::SearchIO::infernal.pm

[Ashton Trey Belew]

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  Good evening,
  I was fiddling with cmsearch this evening and discovered that the
current infernal parser does not play well with the new version (1.1)
of infernal.  I am currently hacking on the function parse_latest() in
an attempt to handle the differences in formats but have hit a bit of
a wall in picking up the accessions and descriptions from the cmsearch
output.
  In a peculiar turn of events, if parse_latest does not find the
accession/description fields, it seems to repeat the PARSER: loop
indefinitely, in my case repeating $self->_readline on the the 10th hit.

  I will keep poking at it this evening, but if anyone has made
greater headway, I would love some pointers.

  Thank you for your time,
 -Trey
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