> -----Original Message----- > From: Thomas Down [mailto:[EMAIL PROTECTED] > Sent: 09 June 2003 18:27 > To: Y D Sun > Cc: [EMAIL PROTECTED] > Subject: Re: [Biojava-l] Elapsed time of feature filtering > > > Just to double-check... I presume you're still talking about > code of the form: > > SequenceDB seqdb = new BioSQLSequenceDB(...); > Sequence seq = seqdb.getSequence("foo"); > FeatureHolder cds = seq.filter(new FeatureFilter.ByType("CDS")); >
Yes. > If the time to do that shows any strong dependancy on the > number of sequences in the database, I'd suggest that this is > (very) strong evidence of missing/corrupted indices. Are you > using the tweaked schema I sent to you last week? Are you > still of PostgreSQL, or have you tried MySQL? > I am using the schema you sent to me on Friday 6 June and PostgreSQL. I create a new database and run the new scheme you sent to me along with biosqldb-assembly-pg.sql and biosql-accelerators-pg.sql downloaded from http://biojava.org/download/biosql/. I haven't tried MySQL. George > Thomas. > _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
