DBREF parsing exception...
Jay Vyas <[email protected]>
| Newsgroups | gmane.comp.java.bio.general |
|---|---|
| Message-ID | <[email protected]> |
Hi guys : It looks like the PDB parser for biojava is tripping up on the
DBREFs for pdb id 3O62 . Its a little bit of a problem for me because
a bunch of exception stack traces are getting streamed to the screen and
making it difficult for me to debug my code....
Is there a way to disable the reading of DBREF lines, or alternatively, is
there
a way to fix the exception ?
badly formatted line ... DBREF 3O62 A 1 135 UNP P84233
H32_XENLA 2 136
java.lang.StringIndexOutOfBoundsException: String index out of range: 68
at java.lang.String.substring(String.java:1934)
at
org.biojava.bio.structure.io.PDBFileParser.pdb_DBREF_Handler(PDBFileParser.java:1979)
at
org.biojava.bio.structure.io.PDBFileParser.parsePDBFile(PDBFileParser.java:2413)
--
Jay Vyas
MMSB/UCHC
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