[Biojava-dev] [Bug 2565] New: Cannot parse uniprot P02768

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2565

           Summary: Cannot parse uniprot P02768
           Product: BioJava
           Version: unspecified
          Platform: PC
        OS/Version: Windows
            Status: NEW
          Severity: normal
          Priority: P2
         Component: seq.io
        AssignedTo: biojava-dev at biojava.org
        ReportedBy: gwaldon at geneinfinity.org


Exception thrown during parsing; sequence available at
http://www.uniprot.org/uniprot/P02768.txt
or
http://www.ebi.ac.uk/cgi-bin/dbfetch?db=uniprot&id=ALBU_HUMAN&style=raw

Problem in reference 62:
RN   [62]
RP   VARIANT TYR-73, AND MASS SPECTROMETRY.
RC   TISSUE=Urine;
RX   MEDLINE=21537959; PubMed=11680902;
RX   DOI=10.1002/1615-9861(200101)1:1<93::AID-PROT93>3.3.CO;2-V;
RA   Spahr C.S., Davis M.T., McGinley M.D., Robinson J.H., Bures E.J.,
RA   Beierle J., Mort J., Courchesne P.L., Chen K., Wahl R.C., Yu W.,
RA   Luethy R., Patterson S.D.;
RT   "Towards defining the urinary proteome using liquid chromatography-
RT   tandem mass spectrometry I. Profiling an unfractionated tryptic
RT   digest.";
RL   Proteomics 1:93-107(2001).


Could not read sequence
java.lang.ArrayIndexOutOfBoundsException: 1
        at
org.biojavax.bio.seq.io.UniProtFormat.readRichSequence(UniProtFormat.java:486)
Caused: org.biojava.bio.seq.io.ParseException: 

A Exception Has Occurred During Parsing. 
Please submit the details that follow to biojava-l at biojava.org or post a bug
report to http://bugzilla.open-bio.org/ 

Format_object=org.biojavax.bio.seq.io.UniProtFormat
Accession=P02768
Id=
Comments=
Parse_block=RN   [61]RP   VARIANT TYR-73, AND MASS SPECTROMETRY.RC  
TISSUE=Urine;RX   MEDLINE=21537959; PubMed=11680902;
DOI=10.1002/1615-9861(200101)1:1<93::AID-PROT93>3.3.CO;2-V;RA   Spahr C.S.,
Davis M.T., McGinley M.D., Robinson J.H., Bures E.J.,
Beierle J., Mort J., Courchesne P.L., Chen K., Wahl R.C., Yu W.,
Luethy R., Patterson S.D.;RT   "Towards defining the urinary proteome using
liquid chromatography-
tandem mass spectrometry I. Profiling an unfractionated tryptic
digest.";RL   Proteomics 1:93-107(2001).
Stack trace follows ....


        at
org.biojavax.bio.seq.io.UniProtFormat.readRichSequence(UniProtFormat.java:615)
        at
org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:110)
Caused: org.biojava.bio.BioException: Could not read sequence
        at
org.biojavax.bio.seq.io.RichStreamReader.nextRichSequence(RichStreamReader.java:113)


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