[Biojava-l] Problem with blast file parser

[Marcel Huntemann]

Hi!

I am experiencing a strange problem with the Blast parser. I am using the
code from the BioJava CookBook
(http://biojava.org/wiki/BioJava:CookBook:Blast:Parser). In the blast file
are the results of 20 contigs. The problem is that the parser only gives
me the results of every other sequence. So I get the results for contig #
1, 3, 5, 7, 9, 11 and then it continues with the even ones 12, 14, 16, 18
and 20. Did anyone experience the same problems or maybe knows what causes
them?

Thanks,
Marcel