[Bioperl-l] [Bioperl-guts-l] Notification: incoming/1118 (fwd)

[Jason Stajich]

I believe this problem may have gone away in the newer implementation of
this module - can you send an example file and/or try and run your code on
the bioperl 1.0alpha2-rc release?

Thanks.
jason

-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu

---------- Forwarded message ----------
Date: Fri, 8 Mar 2002 09:15:13 -0500
From: bioperl-bugs@bioperl.org
To: bioperl-guts-l@bioperl.org
Subject: [Bioperl-guts-l] Notification: incoming/1118

JitterBug notification

new message incoming/1118

Message summary for PR#1118
	From: martin@bioinformatics.leeds.ac.uk
	Subject: BPlite, problems parsing where BLAST has exited abnormally
	Date: Fri, 8 Mar 2002 09:15:12 -0500
	0 replies 	0 followups

====> ORIGINAL MESSAGE FOLLOWS <====

>From martin@bioinformatics.leeds.ac.uk Fri Mar  8 09:15:12 2002
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Date: Fri, 8 Mar 2002 09:15:12 -0500
Message-Id: <200203081415.g28EFCkO004524@pw600a.bioperl.org>
From: martin@bioinformatics.leeds.ac.uk
To: bioperl-bugs@bioperl.org
Subject: BPlite, problems parsing where BLAST has exited abnormally

Full_Name: Martin Lomas
Module: BPlite
Version: 0.7.1
PerlVer: 5.6.0
OS: linux
Submission from: bgypcu02.leeds.ac.uk (129.11.204.216)


Where BLAST has exited unexpectedly BPlite can ebcome locked into a loop looking
for the end of file.
Following changes seem to solve these problems


diff output from: /usr/lib/perl5/site_perl/5.6.0/Bio/Tools/BPlite.pm

407,410d406
<     if(eof($FH))
<       {
<       die "Unexpected EOF in file\n";         # MIS
<       }

solution by M I Sadowski


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