Hi Mark! Mark Schreiber wrote: > You could just customize BlastEcho to pass on the events of interest, > ignore those that are not interesting. That's what I am doing right now. But I don't know, how to tell my customized BlastEcho to stop, when a certain condition is met during a paricular event call. What's the command for stopping there?
> It could also exit if a certain > event occurs. How? > Remember it cost almost nothing to read the file so you > save time by only sending interesting events for parsing. Hmm, I am not sure, if it's really almost nothing, when I've about 90,000 contigs that were blasted against a database with about maybe 3,000,000 genes. The blast output that I am parsing is about 13Gig big and every cycle I am looking for the results of one particular contig of these 90,000 contigs. So I definitely experienced that the time sums up a lot, when it's running in each of these 90,000 cycles over the whole file, although the contig I am looking for was already at the beginning of the file. Cheers, Marcel > > On 7 Mar 2009, 12:01 PM, "Marcel Huntemann" > <[email protected] <mailto:[email protected]>> wrote: > > But where? I can't do it in my customized handler, can I? > > Mark Schreiber wrote: > Because the blast parser uses event based > parsing you should be able to > c... > > > <[email protected] <mailto:[email protected]> > <mailto:[email protected] > <mailto:[email protected]>>> wrote: > > Hi! > > ... > > > <mailto:[email protected] > <mailto:[email protected]>> > > > http://lists.open-bio.org/mailman/listinfo/biojava-l > > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
