Overrides TripalField::load

See also

TripalField::load()

File

tripal_chado/includes/TripalFields/go__gene_expression/go__gene_expression.inc, line 83

Class

go__gene_expression

Code

public function load($entity) {

  $record = $entity->chado_record;
  $field_name = $this->field['field_name'];
  $field_type = $this->field['type'];
  $field_table = $this->instance['settings']['chado_table'];
  $field_column = $this->instance['settings']['chado_column'];

  // Get the FK that links to the base record.
  $schema = chado_get_schema($field_table);
  $base_table = $entity->chado_table;
  $pkey = $schema['primary key'][0];
  $fkey_lcolumn = key($schema['foreign keys'][$base_table]['columns']);
  $fkey_rcolumn = $schema['foreign keys'][$base_table]['columns'][$fkey_lcolumn];

  // Set some defaults for the empty record.
  $entity->{$field_name}['und'][0] = array(
    'value' => array(),
  );

  $linker_table = $base_table . '_expression';
  $options = array(
    'return_array' => 1,
  );
  $record = chado_expand_var($record, 'table', $linker_table, $options);
  $exp_linkers = $record->$linker_table;
  if ($exp_linkers) {
    foreach ($exp_linkers as $i => $exp_linker) {

      // Because the unqiuename is a text field we must expand it.
      $expression = $exp_linker->expression_id;
      $expression = chado_expand_var($expression, 'field', 'expression.uniquename', $options);

      // Set the values that will be seen by the user on the page and in
      // web services, or anwhere this field is viewed.
      $entity->{$field_name}['und'][$i]['value'] = array(
        'name' => $expression->uniquename,
        'description' => $expression->description,
        //'md5checksum' => $expression->md5checksum,
      );

      // Add the pub information if a real pub is associated with the record.
      $pub = $exp_linker->pub_id;
      if ($pub->uniquename != 'null') {
        $pub_details = chado_get_minimal_pub_info($pub);

        $entity->{$field_name}['und'][$i]['value']['publication'] = $pub_details;
        $entity->{$field_name}['und'][$i]['value']['publication']['type'] = $pub->type_id->name;
        if (property_exists($pub, 'entity_id')) {
          $entity->{$field_name}['und'][$i]['publication'][0]['value']['entity'] = 'TripalEntity:' . $pub->entity_id;
        }
      }

      // Add the linker_expressionprop
      $linkerprop_table = $linker_table . 'prop';
      if (chado_table_exists($linkerprop_table)) {
        $exp_linker = chado_expand_var($exp_linker, 'table', $linkerprop_table, $options);
        $exp_linkerprops = $exp_linker->feature_expressionprop;
        if ($exp_linkerprops) {
          foreach ($exp_linkerprops as $linkerprop) {
            $entity->{$field_name}['und'][$i]['value'][$linkerprop->type_id->name] = $linkerprop->value;
          }
        }
      }
      // Add the fields for the widget form.  The name requres the following
      // format if the fields should be used as values for insertint/updating
      // into the chado table:  [table_name]__[field_name]
      $entity->{$field_name}['und'][$i][$linker_table . '__expression_id'] = $expression->expression_id;
      $entity->{$field_name}['und'][$i][$linker_table . '__uniquename'] = $expression->uniquename;
      //$entity->{$field_name}['und'][$i][$linker_table . '__md5checksum'] = $expression->md5checksum;
      $entity->{$field_name}['und'][$i][$linker_table . '__description'] = $expression->description;

    }
  }
}