[Bioperl-l] error with blast parsing by searchIO

Jason Stajich jason at bioperl.org
Sun Apr 15 14:24:56 EDT 2007


It looks like something is broken in your script as to how you are  
passing it a filename - it is trying to open a file called "BLASTN  
2.2.13 [Nov-27-2005]".
did you already open the file and are you passing data from the first  
line of the file to SearchIO perhaps?
Sending the relevant part of your script to the list will help us  
diagnose the problem better.

-jason
On Apr 15, 2007, at 9:13 AM, sergei ryazansky wrote:

> Hello all,
>
> script (parsing blastn report) that previously had worked today  
> "tell" me
> that:
>
> ------------- EXCEPTION  -------------
> MSG: Could not open BLASTN 2.2.13 [Nov-27-2005]
> : No such file or directory
> STACK Bio::Root::IO::_initialize_io c:/Perl/site/lib/Bio/Root/IO.pm: 
> 273
> STACK Bio::Root::IO::new c:/Perl/site/lib/Bio/Root/IO.pm:213
> STACK Bio::SearchIO::new c:/Perl/site/lib/Bio/SearchIO.pm:135
> STACK Bio::SearchIO::new c:/Perl/site/lib/Bio/SearchIO.pm:167
> STACK toplevel parse-te-lib2.pl:3
>
> --------------------------------------
>
> What does it mean??
>
> ps. bioperl-1.4 with ActivePerl 5.8.7&5.8.8
>
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l

--
Jason Stajich
jason at bioperl.org
http://jason.open-bio.org/


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