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

Emeric Sevin emeric.sevin at univ-rennes1.fr
Wed Apr 11 09:32:38 EDT 2007


Hi everybody,

I'm sorry to bug, but either I missed something so obvious nobody 
bothered to answer, either I'm being a little boycotted here...
A little help would be very much appreciated

Le 22 mars 07, à 16:07, Emeric Sevin a écrit :

> 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_______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l
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