organism;
$references = array();
// expand the organism object to include the records from the organism_dbxref table
$options = array('return_array' => 1);
$organism = chado_expand_var($organism, 'table', 'organism_dbxref', $options);
$organism_dbxrefs = $organism->organism_dbxref;
if (count($organism_dbxrefs) > 0 ) {
foreach ($organism_dbxrefs as $organism_dbxref) {
if($organism_dbxref->dbxref_id->db_id->name == 'GFF_source'){
// check to see if the reference 'GFF_source' is there. This reference is
// used to if the Chado Perl GFF loader was used to load the organisms
}
else {
$references[] = $organism_dbxref->dbxref_id;
}
}
}
if(count($references) > 0){ ?>
External references for this organism
db_id->name == 'GFF_source'){
continue;
}
$dbname = $dbxref->db_id->name;
if ($dbxref->db_id->url) {
$dbname = l($dbname, $dbxref->db_id->url, array('attributes' => array('target' => '_blank')));
}
$accession = $dbxref->accession;
if ($dbxref->db_id->urlprefix) {
$accession = l($accession, $dbxref->db_id->urlprefix . $dbxref->accession, array('attributes' => array('target' => '_blank')));
}
if (property_exists($dbxref, 'is_primary')) {
$accession .= " (primary cross-reference)";
}
$rows[] = array(
$dbname,
$accession
);
}
// the $table array contains the headers and rows array as well as other
// options for controlling the display of the table. Additional
// documentation can be found here:
// https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
$table = array(
'header' => $headers,
'rows' => $rows,
'attributes' => array(
'id' => 'tripal_organism-table-references',
'class' => 'tripal-data-table'
),
'sticky' => FALSE,
'caption' => '',
'colgroups' => array(),
'empty' => '',
);
// once we have our table array structure defined, we call Drupal's theme_table()
// function to generate the table.
print theme_table($table);
}?>