Web Services Blastn Problems

Andrew73 · 03-05-2013, 02:17 PM

Hi, I've just started trying out the WSDL web services and I'm trying to implement a workflow for the NCBI Blastn web service.

I know the contigs that I want to blast are available and on the nt database however, I keep getting incorrect database errors when trying to run.

The only documentation I can find on the database abbreviations of NCBI have been less than useful, but I thought nt would be pretty straight forward.

Following this large problem, I set up an alternative by downloading the whole nt database from NCBI and ran a blastall on an AWS instance, which took over an hour and a half for a single contig.

So I'm struggling to be honest and would appreciate anyone's insight or suggestions.

thanks for reading!

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03-05-2013, 02:17 PM	#1
Andrew73 Junior Member Location: Newcastle Upon Tyne Join Date: Mar 2013 Posts: 1	Web Services Blastn Problems Hi, I've just started trying out the WSDL web services and I'm trying to implement a workflow for the NCBI Blastn web service. I know the contigs that I want to blast are available and on the nt database however, I keep getting incorrect database errors when trying to run. The only documentation I can find on the database abbreviations of NCBI have been less than useful, but I thought nt would be pretty straight forward. Following this large problem, I set up an alternative by downloading the whole nt database from NCBI and ran a blastall on an AWS instance, which took over an hour and a half for a single contig. So I'm struggling to be honest and would appreciate anyone's insight or suggestions. thanks for reading!