I personally would. Especially that I have just solved the problem myself, unaware that someone did that already.
BTW: the problem I picked up (which seems similar to the description given) was that new set line (as evaluated by checkNewBlastLikeDataSet in BlastSAXParser) wasn't picked up by HitSectionSAXParser and neither it percolated up to BlastSAXParser, thus leaving the state machine of the parser in a weird state. It would recover by skipping everything up to the next data set (thus the result of having every other item processed). BTW2: XML parser in 1.6 doesn't deal with new BLAST files either (2.19, was it?). Has this been fixed in the SVN repository? Cheers, Marcin -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of Marcel Huntemann Sent: Thursday, January 29, 2009 4:25 PM To: Andreas Prlic Cc: biojava-dev; [email protected] Subject: Re: [Biojava-l] Problem with blast file parser That sounds reasonable. I bet a lot of people would appreciate that! Andreas Prlic wrote: > Hi, > > We had a couple of bug reports recently regarding issues that already > got fixed in the latest biojava builds from SVN. I think it is time to > start preparing the next biojava release ( 1.7 ) to make sure > everybody gets up to the latest status... > > Andreas _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
