This record is malformed, it's something we've seen internally with the new version of genbank. It's missing the TYPE tag in columns 45-53. I'd suggest: 1) Dummy up your record so it conforms to the Genbank spec. 2) Comment out the body of parseLocusLinePost127() if you don't need any information from there.
Greg > -----Original Message----- > From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]] > Sent: Wednesday, February 27, 2002 1:28 PM > To: [EMAIL PROTECTED] > Subject: [Biojava-l] Encountered a Parsing Exception on Genbank > > > In attempting to parse the source file for Genbank accession > number AB030903, > the following exception was encountered. Any ideas would be greatly > appreciated ! > ---------------------------------------------------------- > > org.biojava.bio.seq.io.ParseException: LOCUS line incorrectly > tokenized [LOCUS AB030903 1441 bp > linear VRT 15-AUG-2000] > > at > org.biojava.bio.seq.io.GenbankContext.parseLocusLinePost127(Ge > nbankFormat.java:611) > > at > org.biojava.bio.seq.io.GenbankContext.processHeaderLine(Genban > kFormat.java:521) > > at > org.biojava.bio.seq.io.GenbankContext.processLine(GenbankForma > t.java:372) > > at > org.biojava.bio.seq.io.GenbankFormat.readSequence(GenbankForma > t.java, Compiled Code) > > at > org.biojava.bio.seq.io.StreamReader.nextSequence(StreamReader. > java:100) > > rethrown as org.biojava.bio.BioException: Could not read sequence > > at > org.biojava.bio.seq.io.StreamReader.nextSequence(StreamReader. > java:103) > > at seq.UpdatedTestGenbank.main(UpdatedTestGenbank.java, > Compiled Code) > > Process exited with exit code 1. > > Best Regards, > Larry Cantey > > > _______________________________________________ > Biojava-l mailing list - [EMAIL PROTECTED] > http://biojava.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
