[Bioperl-l] Error when using SearchIO

[Fields, Christopher J]

On Dec 1, 2011, at 11:36 AM, Juan Jovel wrote:

> Hello Everybody!
> I have been running endless standalone Blasts these days, in two different clusters. The first one runs on Rock Linux, while the other one on Devian. In the Rock Linux one, when I use SeachIO to parse my blastp or blastx reports, I get invariably a message:
> "Replacement list is longer than search list at /share/apps/lib/perl5/site_perl/5.14.1/Bio/Range.pm line 251"
> What it does mean? Would it have any effect on my parsing results?
> Thanks, 
> JUAN

This is a bug that was fixed, I think this was in the latest BioPerl release (1.6.901).  There was a transliteration error that produced this warning, but otherwise it's harmless. The warning is perl version dependent, I think it pops up in perl 5.12 and up.  This user post (about halfway down) runs into the same issue: http://www.sysarchitects.com/bioperl.

chris