[Bioperl-l] rpsblast results unsupported by Bio::SearchIO::Writer

Emeric Sevin emeric.sevin at univ-rennes1.fr
Thu Mar 22 11:07:57 EDT 2007


Hello,

I am new to this community, and apologize if this subject has been 
posted before.

I want to print out only selected results from a multiple 
blast-alignments results file. Problem is, the algorithm used is 
rpsblast. The parsing (with Bio::SearchIO) goes fine, but the actual 
writing task yields "unclean" warnings. Although an ouput is actually 
written, the writer (Bio::SearchIO::Writer::TextResultWriter) seems to 
be disturbed by the fact rpsblast DBs are not labeled with 
"protein"/"nucleic"/"translated".
Does anybody know of an easy fix to that bug, or of another way to come 
around it?

Thank you very much

Emeric SEVIN
Université de Rennes 1
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