Bio-Das-ProServer

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

    database group (optional, default configured in INI or 'core')
  Returns:
    listref of L<Bio::EnsEMBL::Gene|Bio::EnsEMBL::Gene> objects

=head2 version - Gets the Ensembl API's release number.

  $sVersion = $oTransport->version();
  
=head2 last_modified - Gets a last modified date from the database.

  $sVersion = $oTransport->version();

=head2 disconnect - ProServer hook to disconnect all connected databases.

  $oTransport->disconnect();

=head1 CONFIGURATION AND ENVIRONMENT

Configured as part of each source's ProServer 2 INI file.

  The transport will automatically load database connection settings from
  the Ensembl Registry at ensembldb.ensembl.org. To skip this, set the
  'skip_registry' INI property.
  
  A specific database may also be overridden using these INI properties:
    dbname
    host     (defaults to localhost)
    port     (defaults to 3306)
    username (defaults to ensro)
    password

  The 'default database' used in the transport's data access methods may be
  configured using these INI properties:
    species  (defaults to human)
    group    (defaults to core)

=head1 DIAGNOSTICS

=head1 CONFIGURATION AND ENVIRONMENT

=head1 DEPENDENCIES

=over

=item L<Carp|Carp>

=item L<English|English>

=item L<Bio::Das::ProServer::SourceAdaptor::Transport::generic|Bio::Das::ProServer::SourceAdaptor::Transport::generic>

=item Ensembl core API

=item Additional Ensembl APIs if used

=back

=head1 INCOMPATIBILITIES

None reported

=head1 BUGS AND LIMITATIONS

None reported

=head1 REFERENCES

=over

=item L<http://www.ensembl.org/info/software/Pdoc/ensembl/|http://www.ensembl.org/info/software/Pdoc/ensembl/> Ensembl API

=back

=head1 AUTHOR

Andy Jenkinson <andy.jenkinson@ebi.ac.uk>

=head1 LICENSE AND COPYRIGHT

Copyright (c) 2007 EMBL-EBI



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