Bio::DB::Biblio::biofetch - A BioFetch-based access to a bibliographic citation retrieval Do not use this object directly, only access it through the Bio::Biblio module: use Bio::Biblio; my $biblio = new Bio::Biblio (-access => 'biofetch'); my $ref = $biblio->get_by_id('20063307')); my $ids = ['20063307', '98276153']; my $refio = $biblio->get_all($ids); while ($ref = $refio->next_bibref) { print $ref->identifier, "\n"; } This class uses BioFetch protocol based service to retrieve Medline references by their ID.

Mailing Lists
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated. bioperl-l@bioperl.org - General discussion http://bioperl.org/MailList.shtml - About the mailing lists

Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via email or the web: bioperl-bugs@bioperl.org http://bugzilla.bioperl.org/ Heikki Lehvaslaiho (heikki@ebi.ac.uk) Copyright (c) 2002 European Bioinformatics Institute. All Rights Reserved. This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself. This software is provided "as is" without warranty of any kind. Only method get_by_id() is supported. The main documentation details are to be found in Bio::DB::BiblioI. Here is the rest of the object methods. Internal methods are preceded with an underscore _.

get_by_id
Title : get_by_id Usage : $entry = $db->get__by_id('20063307') Function: Gets a Bio::Biblio::RefI object by its name Returns : a Bio::Biblio::Medline object Args : the id (as a string) of the reference

get_all
Title : get_all Usage : $seq = $db->get_all($ref); Function: Retrieves reference objects from the server 'en masse', rather than one at a time. For large numbers of sequences, this is far superior than get_by_id(). Example : Returns : a stream of Bio::Biblio::Medline objects Args : $ref : either an array reference, a filename, or a filehandle from which to get the list of unique ids/accession numbers.

get_seq_stream
Title : get_seq_stream Usage : my $seqio = $self->get_seq_sream(%qualifiers) Function: builds a url and queries a web db Returns : a Bio::SeqIO stream capable of producing sequence Args : %qualifiers = a hash qualifiers that the implementing class will process to make a url suitable for web querying

postprocess_data
Title : postprocess_data Usage : $self->postprocess_data ( 'type' => 'string', 'location' => \$datastr); Function: process downloaded data before loading into a Bio::SeqIO Returns : void Args : hash with two keys - 'type' can be 'string' or 'file' - 'location' either file location or string reference containing data

VERSION and Revision
Usage : print $Bio::DB::Biblio::biofetch::VERSION; print $Bio::DB::Biblio::biofetch::Revision;

Defaults
Usage : print $Bio::DB::Biblio::biofetch::DEFAULT_SERVICE;