[Bioperl-l] Small-bugfix in BPpsilite.pm

[Jason Stajich]

Thank you Arne - all the changes looks good.  

The FILEHANDLE should be closed when it goes out of scope in the
_preprocess method, but we should explictly close it as you have added.

Thanks for sending a note to the list - can you be sure and include
comments in your commits in the future though, so someone can interpret
your changes by looking at the log messages for a file.

When you do cvs commit make sure you specify the -m flag with a comment
like:
% cvs commit -m "your message here" [specific module to commit - or leave
                                     blank to commit all changes in CWD]


Quick question regarding Iteration changes:
Are you sure you want to check only on A-Z - do want the pattern to check
for lowercase as well?  This then expects all Query lines from PSIBLAST to
be uppercased - perhaps that is always the case?

-Jason
On 5 Jul 2001, Arne Elofsson wrote:

> 
> Hi again
> 
> I noticed that  in  _preprocess the temporary files where not
> closed. This results in that the whole file from tha last iteration
> can not be read. This is fixed.
> 
> yours
> 
> arne
> 
> PS. Also made a small change to the regexp processing in
> Iteration::Align to handle this processing better.
> 
> 
> -- 
> ------------------------------------------------------------------------
>    OBS: New Phone number from July 27; +46-8-553 78 568
> ------------------------------------------------------------------------
>  Arne Elofsson     Stockholm Bioinformatics Center
>  Net:      arne@sbc.su.se http://www.sbc.su.se/~arne/
>  Tel:+46-8-161553   Stockholm Bioinformatics Center, Stockholm University
>  Fax:+46-8-158057   10691 Stockholm, Sweden
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Jason Stajich
jason@chg.mc.duke.edu
Center for Human Genetics
Duke University Medical Center 
http://www.chg.duke.edu/