view release on metacpan or  search on metacpan

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

$LastChangedRevision: 688 $

=head1 SYNOPSIS

  Interactions involving 001:
  <host>/das/<source>/interaction?interactor=001
  
  Interactions between 001 and 002
  <host>/das/<source>/interaction?interactor=001;interactor=002
  
  Interactions with some form of evidence:
  <host>/das/<source>/interaction?interactor=001;detail=property:evidence
  
  Interactions of a specific type:
  <host>/das/<source>/interaction?interactor=001;detail=property:type,value:foo

=head1 DESCRIPTION

  Serves up interaction DAS responses, using a file-based transport.

=head1 SUBROUTINES/METHODS

=head2 capabilities

=head2 build_interaction

=head1 DIAGNOSTICS

=head1 CONFIGURATION AND ENVIRONMENT

  [simple_interaction]
  adaptor               = simple_interaction
  state                 = on
  transport             = file
  filename              = /data/interactions.txt
  interactors.filename  = /data/interactors.txt
  coordinates           = MyCoordSys -> 001
  
  Tab-separated file formats:
  
  --interactors.txt--
  id	label	dbSource	dbSourceCvId	dbVersion	dbAccession	dbCoordSys	sequence	property	value	propertyCvId	valueCvId	start	end	startStatus	endStatus	startStatusCvId	endStatusCvId
  
  --interactions.txt--
  interactor,interactor,..(sorted)	label	dbSource	dbSourceCvId	dbVersion	dbAccession	property	value	propertyCvId	valueCvId



=head1 DEPENDENCIES

=over

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

=back

=head1 INCOMPATIBILITIES

None reported

=head1 BUGS AND LIMITATIONS

None reported

=head1 AUTHOR

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

=head1 LICENSE AND COPYRIGHT

Copyright (c) 2007 EMBL-EBI

=cut