[Bioperl-l] GenBank db property?
Wiepert, Mathieu
Wiepert.Mathieu@mayo.edu
Wed Jan 15 21:29:20 EST 2003
Hi,
I was fetching some sequences with Bio::DB::GenBank, and noticed that though I was requesting nucleotides, the db was being set to protein in the url that was built up. The parameters, as near as I can tell, are set in the %PARAMSTRING, in the BEGIN block of GenBank.pm. How can I change the 'db' property when I instantiate the GenBank object? I tried passing in a parameter 'db' => 'nucleotide', that didn't work, I am sure it is simple to do? Or do I have to directly access the variable to change it.
$gb = new Bio::DB::GenBank(-db => 'nucleotide'); #don't think this is supposed to do anything
$gb->request_format('gb'); #Did get me the genbank format that I wanted, that was nice.
Thanks,
-Mat
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