That was indeed a bug. I have made a change to the date parsing in EMBLFormat and committed it to CVS. Could you test it for me please?
cheers, Richard On Fri, 2006-04-07 at 11:20 +0200, Morgane THOMAS-CHOLLIER wrote: > Hello, > > I am currently using biojavax that I checked out today from CVS to parse > an EMBL file, exported from EBI SRS server. > > I ran into this error : > > Exception in thread "main" org.biojava.bio.BioException: Could not read > sequence > at > org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:111) > at > org.embnet.be.biojavax.tryout.EMBLParseTest.main(EMBLParseTest.java:34) > Caused by: org.biojava.bio.seq.io.ParseException: Bad date type found: 86 > at > org.biojavax.bio.seq.io.EMBLFormat.readRichSequence(EMBLFormat.java:278) > at > org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:108) > ... 1 more > > The EMBL file is : > > ID DQ158013 standard; genomic DNA; VRT; 118 BP. > XX > AC DQ158013; > XX > SV DQ158013.1 > XX > DT 19-JAN-2006 (Rel. 86, Created) > DT 19-JAN-2006 (Rel. 86, Last updated, Version 1) > XX > DE Triturus helveticus clone Thel.b9 HOXB9 (Hoxb9) gene, partial cds. > > Removing the two lines that comprise the date information resolves the > problem. > > Thanks, > > Morgane. > -- Richard Holland European Bioinformatics Institute Wellcome Trust Genome Campus, Hinxton Cambridge CB10 1SD, UK Tel: +44-(0)1223-494416 --------------- _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
