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lib/Bio/Das/ProServer/SourceAdaptor/Transport/martservice.pm  view on Meta::CPAN

Get/set the MartService dataset name.

=head2 attributes

Get/set the list of attributes to be retrieved from the MartService.  This may be specified as
an arrayref or a comma-delimited list.

=head2 ua

Return a cached LWP::UserAgent object or instantiate a new one.

=head2 build_query_xml

Takes a hashref of name/value pairs and returns an XML query string to be POSTed to the MartService.

=head2 query

Passed a list of name/value pairs, performs a query against the MartService and returns an arrayref
of returned results.  Each result is a hashref with keys named after this object's B<attributes>.    

=head1 DIAGNOSTICS

=head1 CONFIGURATION AND ENVIRONMENT

The following values may be specified in the main configuration file:

=over 4

=item martservice

The URL for the BioMart MartService.

=item dataset

The name of the MartService dataset.

=item attributes

A comma-separated list of attributes to be retrieved from the BioMart MartService.

=item timeout

How long (in seconds) to wait for a response from the BioMart MartService.

=back

=head1 DEPENDENCIES

=over 4

=item List::MoreUtils

=item LWP::UserAgent

=item XML::Writer

=back

=head1 INCOMPATIBILITIES

=head1 BUGS AND LIMITATIONS

=head1 AUTHOR

Ray Miller <rm7@sanger.ac.uk>

=head1 LICENSE AND COPYRIGHT

Copyright (c) 2009 Wellcome Trust Sanger Institute

This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself.  See DISCLAIMER.txt for
disclaimers of warranty.

=cut