pubmed2ref documentation.

BEGIN {

     # set the version for version checking
    $VERSION = do { my @r = (q$$Revision: 1.2 $ =~ /\d+/g); sprintf "%d.%-02d", @r };
    $Revision = q$$Id: pubmed2ref.pm,v 1.2 2002/10/22 07:45:13 lapp Exp $;

}

sub _load_instance {

    my ($self, $source) = @_;

    my $result;
    my $article = $$source{'article'};
    if (defined $article) {
	if (defined $$article{'journal'}) {
	    $result = $self->_new_instance ('Bio::Biblio::PubmedJournalArticle');
	    $result->type ('JournalArticle');
	} elsif (defined $$article{'book'}) {
	    $result = $self->_new_instance ('Bio::Biblio::PubmedBookArticle');
	    $result->type ('BookArticle');
	} else {
	    $result->type ('PubmedArticle');
	}
    }
    $result = $self->_new_instance ('Bio::Biblio::Ref') unless defined $result;
    return $result;

}

sub convert {

    my ($self, $source) = @_;
    my $result = $self->SUPER::convert ($source->{'Citation'});	

    # here we do PUBMED's specific stuff
    my $pubmed_data = $$source{'PubmedData'};
    if (defined $pubmed_data) {

	# ... just take it (perhaps rename it)
	$result->pubmed_status ($$pubmed_data{'publicationStatus'}) if defined $$pubmed_data{'publicationStatus'};
	$result->pubmed_provider_id ($$pubmed_data{'providerId'}) if defined $$pubmed_data{'providerId'};
	$result->pubmed_article_id_list ($$pubmed_data{'pubmedArticleIds'}) if defined $$pubmed_data{'pubmedArticleIds'};
	$result->pubmed_url_list ($$pubmed_data{'pubmedURLs'}) if defined $$pubmed_data{'pubmedURLs'};

	# ... put all dates from all 'histories' into one array
	if (defined $$pubmed_data{'histories'}) {
	    my @history_list;
	    foreach my $history ( @{ $$pubmed_data{'histories'} } ) {
		my $ra_pub_dates = $$history{'pubDates'};
		foreach my $pub_date ( @{ $ra_pub_dates } ) {
		    my %history = ();
		    my $converted_date = &Bio::Biblio::IO::medline2ref::_convert_date ($pub_date);
		    $history{'date'} = $converted_date if defined $converted_date;
		    $history{'pub_status'} = $$pub_date{'pubStatus'} if defined $$pub_date{'pubStatus'};
		    push (@history_list,\% history);
		}
	    }
	    $result->pubmed_history_list (\@history_list);
	}
    }

    # Done!
    return $result;
}

1;
__END__

}

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
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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/

BEGIN		Code
_load_instance	No description	Code
convert	No description	Code