[Bioperl-l] Connecting to EnsEMBL databases help!
venomousanimal
venomousanimal at web.de
Thu Oct 6 02:56:55 EDT 2005
Olena Morozova schrieb:
>I am using the following script to connect to the Ensembl core. I keep
>getting the message "unknown database homo_sapiens_core". Anyone knows
>a solution to this?
>I would really appreciate any help!
>Thanks
>Olena
>
>#!/bin/perl -w
>
>use lib 'C:/perl/lib/ensembl/modules';
>use Bio::EnsEMBL::DBSQL::DBAdaptor;
>use Bio::EnsEMBL::DBSQL::SliceAdaptor;
>
>my $host = 'ensembldb.ensembl.org';
>my $user = 'anonymous';
>my $dbname = 'homo_sapiens_core';
>my $db = new Bio::EnsEMBL::DBSQL::DBAdaptor(
> -host => $host,
> -user => $user,
> -dbname => $dbname);
>
>my $slice_adaptor = $db->get_SliceAdaptor();
>my $slice = $slice_adaptor->fetch_by_region('chromosome',
>'X');
>
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>
>
u have to say which homospainscordb u want.
eg
homo_sapiens_core35e
u can look up at ensembl homepage which one is the most recent at the moment
or look in the api help
good luck
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