Hi David, You may change the following three numbers to a very large number, this will effectively disable batching (one batch):
lib/BioMart/Dataset/GenomicSequence.pm use constant BATCHSIZE => 100; lib/BioMart/Initializer.pm use constant INITBATCHSIZE =>200; use constant MAXBATCHSIZE => 50000; Hope this helps, Junjun From: "David M. Goodstein" <[email protected]<mailto:[email protected]>> Date: Tue, 12 Jul 2011 19:23:11 -0400 To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: [BioMart Users] how do I disable batch processing? I'm trying to debug a BioMart problem in which pieces of coding sequence from the same transcript are appearing under separate (though identical) headers in FASTA output when using the compressed webfile (notify by email) option. I want to test if disabling batch processing will have any impact. thanks, -David David M. Goodstein, Ph.D. Joint Genome Institute / Lawrence Berkeley National Lab Center for Integrative Genomics / UCBerkeley http://www.phytozome.net
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