[Biojava-dev] [Bug 2244] New: uniprot files do not load

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2244

           Summary: uniprot files do not load
           Product: BioJava
           Version: live (CVS source)
          Platform: PC
        OS/Version: Windows XP
            Status: NEW
          Severity: normal
          Priority: P2
         Component: seq.io
        AssignedTo: biojava-dev at biojava.org
        ReportedBy: gwaldon at geneinfinity.org


Exceptions are thrown when Uniprot files are tentatively read by the biojavax
parser.

Reading P01717 or P07724 with RichSequence.IOTools.readUniProt throw :
Caused by: java.lang.ArrayIndexOutOfBoundsException: 1
        at
org.biojavax.bio.seq.io.UniProtFormat.readRichSequence(UniProtFormat.java:393)
        at
org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:110)

P07724

(this one initially reported by Sofia Burvall)
Reading P13346 throw:
Caused by: org.biojava.bio.seq.io.ParseException: Bad date line found:
01-JAN-1990 (Rel. 13, Created)
        at
org.biojavax.bio.seq.io.UniProtFormat.readRichSequence(UniProtFormat.java:349)
        at
org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:110)


-- 
Configure bugmail: http://bugzilla.open-bio.org/userprefs.cgi?tab=email
------- You are receiving this mail because: -------
You are the assignee for the bug, or are watching the assignee.