On 24 Apr 2007, at 17:34, Syed Haider wrote:
Hi Max
Correct, It should not return nucleotide sequence.
cc'ing to Benoit, who is expert on 'Compara Marts' and he would be back
with his findings. I am not sure about Martshell, I'll get back to you
when I find this out.
Hi Max,
I don't think you would be able to use MShell with compara mart
sequence.
This code is a bit out of date and at the moment it only supports a
standard 'genomic' types
a.
Cheers
Syed
On Tue, 2007-04-24 at 17:23 +0100, Maximilian Haeussler wrote:
Warning: this query would return ~665MB of data :)
But I just wanted the peptide alignments, not 665 MB of strange
nucleotides... :-)
Well I think there is a problem with the martview output. Compare it
with the website martivew output (compara homology, human, ciona,
orthologs, features=alignments, no filter):
The output should be 15 MB and not genomic sequence... or maybe there
is something else that I don't know about the XML-parameters...
Is there a way to do this with martshell?
cheers,
Max
--
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Syed Haider.
EMBL-European Bioinformatics Institute
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
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Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
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