[BioRuby] Remote blast not working?

[Toshiaki Katayama]

As for the GenomeNet part, it is already fixed but not yet released.

https://github.com/bioruby/bioruby/blob/master/lib/bio/appl/blast/genomenet.rb#L241

You can replace your installation with the above file for quick fix.

Thanks,
Toshiaki

On 2011/03/17, at 6:12, Michael Barton wrote:

> Hi,
> 
> I'm struggling to use the remote blast part of bioruby. I get errors using
> either the ddbj or genomenet versions. With genomenet I get an error about
> a nil response and with genomenet I get an error for 'cannot understand
> response'. I've tried different combinations of databases and options but keep
> getting the same problems.
> 
> Bio::Blast::Remote.ddbj('blastp', 'nr-aa', '-e 0.001')
> 
> Can anyone offer any suggestions?
> 
> Cheers
> 
> Mike
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