[Biojava-l] BlastXMLParserFacade

[DMGoodstein at lbl.gov]

I was wondering if anyone has successfully gotten
BlastXMLParserFacade to work on an xml style NCBI
blast output file (version 2.2.3)? I'm getting null
pointer exceptions deep within the crimson parser
implementation classes, but I now i'm correctly
passing in the NCBI output file, since the dtd is
getting read.

--David Goodstein
  Joint Genome Institute

/usr/java/j2sdk1.4.1_02/bin/java2/bin/java
-classpath .:./biojava-1.3.1
.1.jar BlastParser fred.xml
a/j2sdk1.4.1_02/bin/javac -classpath .:./biojava-1.3.
java.lang.NullPointerException
	at
org.apache.crimson.parser.Parser2.parseInternal(Parser2.java:524)
	at
org.apache.crimson.parser.Parser2.parse(Parser2.java:305)
	at
org.apache.crimson.parser.XMLReaderImpl.parse(XMLReaderImpl.java:442)
	at
org.biojava.bio.program.sax.blastxml.BlastXMLParserFacade.parse(BlastXMLParserFacade.java:172)
	at BlastParser.main(BlastParser.java:44)
1.jar BlastParser
./fred.xmlava/j2sdk1.4.1_02/bin/java -classpath
.:./biojava-1.3.1
java.lang.NullPointerException
	at
org.apache.crimson.parser.Parser2.parseInternal(Parser2.java:524)
	at
org.apache.crimson.parser.Parser2.parse(Parser2.java:305)
	at
org.apache.crimson.parser.XMLReaderImpl.parse(XMLReaderImpl.java:442)
	at
org.biojava.bio.program.sax.blastxml.BlastXMLParserFacade.parse(BlastXMLParserFacade.java:172)
	at BlastParser.main(BlastParser.java:44)