NAME

         GO::IO::OBDXML - dump GO terms as xml

SYNOPSIS

           my $apph = GO::AppHandle->connect(-d=>$go, -dbhost=>$dbhost);
           my $term = $apph->get_term({acc=>00003677});

           #### ">-" is STDOUT
           my $out = new FileHandle(">-");

           my $xml_out = GO::IO::OBDXML->new(-output=>$out);
           $xml_out->start_document();
           $xml_out->draw_term($term);
           $xml_out->end_document();

       OR:

           my $apph = GO::AppHandle->connect(-d=>$go, -dbhost=>$dbhost);
           my $term = $apph->get_node_graph(-acc=>00003677, -depth=>2);
           my $out = new FileHandle(">-");

           my $xml_out = GO::IO::OBDXML(-output=>$out);
           $xml_out->start_document();
           $xml_out->draw_graph($term, 3677);
           $xml_out->end_document();

DESCRIPTION

       Utility class to dump GO terms as OBD XML.  Currently you just call start_ducument, then
       draw_term for each term, then end_document.

   new
           Usage   - my $xml_out = GO::IO::OBDXML->new(-output=>$out);
           Returns - None
           Args    - Output FileHandle

       Initializes the writer object.  To write to standard out, do:

       my $out = new FileHandle(">-"); my $xml_out = new GO::IO::OBDXML(-output=>$out);

   cgi_header
           Usage   - $xml_out->cgi_header;
           Returns - None
           Args    - None

       cgi_header prints the "Content-type: text/xml" statement.  If creating a CGI script, you
       should call this before start_document.

   start_document
           Usage   - $xml_out->start_document;
           Returns - None
           Args    - None

       start_document takes care of the fiddly bits like xml declarations, namespaces, etc.  It
       draws the initial tags and leaves the document ready to add go:term nodes.

   start_graph
           Usage   - $xml_out->start_graph;
           Returns - None
           Args    - None

       start_graph opens a new graph segment.

   end_document
           Usage   - $xml_out->end_document;

       Call this when done.

   end_graph
           Usage   - $xml_out->end_graph;

       Call this when done a graph segment.

   draw_node_graph
           Usage   - $xml_out->draw_node_graph(-graph=>$graph);
           Returns - None
           Args    -graph=>$graph,
                   -show_associations=>'yes' or 'no', # optional, default 'yes'.
                   -show_terms=>'yes' or 'no',        # optional, default 'yes'.
                   -show_xrefs=>'yes' or 'no',        # optional, default 'yes'.
                   -show_evidence=>'yes' or 'no',     # optional, default 'yes'.

   draw_term
           Usage   - $xml_out->draw_term();
           Returns - None
           Args    -term=>$term,
                   -graph=>$graph,                    # optional
                   -show_associations=>'yes' or 'no', # optional, default 'yes'.
                   -show_terms=>'yes' or 'no',        # optional, default 'yes'.
                   -show_xrefs=>'yes' or 'no',        # optional, default 'yes'.
                   -show_evidence=>'yes' or 'no',     # optional, default 'yes'.