Overrides TripalFieldFormatter::view

See also

TripalFieldFormatter::view()

File

tripal_chado/includes/TripalFields/sbo__relationship/sbo__relationship_formatter.inc, line 59

Class

sbo__relationship_formatter

Code

public function view(&$element, $entity_type, $entity, $langcode, $items, $display) {

  // Get the settings
  $settings = $display['settings'];
  $rows = array();
  $headers = array($settings['title']);

  foreach ($items as $delta => $item) {
    if (empty($item['value'])) {
      continue;
    }
    $subject_name = $item['value']['local:relationship_subject']['schema:name'];
    $subject_type = $item['value']['local:relationship_subject']['rdfs:type'];
    $object_name = $item['value']['local:relationship_object']['schema:name'];
    $object_type = $item['value']['local:relationship_object']['rdfs:type'];
    $phrase = $item['value']['SIO:000493'];

    // Handle some special cases.
    // For mRNA objects we don't want to show the CDS, exons, 5' UTR, etc.
    // we want to show the parent gene and the protein.
    if ($object_type == 'mRNA' and 
      (in_array($subject_type, array('CDS', 'exon', 'five_prime_UTR', 'three_prime_UTR')))) {
      continue;
    }

    // Add bold font to the object and subject names.
    $phrase = preg_replace("/$subject_type/", "<b>$subject_type</b>", $phrase);
    $phrase = preg_replace("/$object_type/", "<b>$object_type</b>", $phrase);

    // Convert the object/subject to a link if an entity exists for it.
    if (array_key_exists('entity', $item['value']['local:relationship_object'])) {
      list($entity_type, $object_entity_id) = explode(':', $item['value']['local:relationship_object']['entity']);
      if ($object_entity_id != $entity->id) {
        $link = l($object_name, 'bio_data/' . $object_entity_id);
        $phrase = preg_replace("/$object_name/", $link, $phrase);
      }
    }
    if (array_key_exists('entity', $item['value']['local:relationship_subject'])) {
      list($entity_type, $subject_entity_id) = explode(':', $item['value']['local:relationship_subject']['entity']);
      if ($subject_entity_id != $entity->id) {
        $link = l($subject_name, 'bio_data/' . $subject_entity_id);
        $phrase = preg_replace("/$subject_name/", $link, $phrase);
      }
    }

    $rows[][] = array(
      'data' => $phrase,
      'class' => array('tripal-entity-unattached field-items')
    );
  }

  // Build the pager
  $items_per_page = array_key_exists('items_per_page', $this->instance['settings']) ? $this->instance['settings']['items_per_page'] : 10;
  $total_records = count($rows);
  $total_pages = (int) ($total_records / $items_per_page) + 1;
  $pelement = 0; //$this->getPagerElementID();
  $current_page = pager_default_initialize($total_records, $items_per_page, $pelement);
  $pager = theme('pager', array(
    'tags' => array(),
    'element' => $pelement,
    'parameters' => array(),
    'quantity' => $total_pages,
  ));
  $pager = $this->ajaxifyPager($pager, $entity);
  $page_items = array_chunk($rows, $items_per_page);

  $content = '';
  if ($total_pages > 1) {
    if (count($rows) == 1) {
      $content = 'There is ' . count($rows) . ' relationship.';
    }
    if (count($rows) > 1) {
      $content = 'There are ' . count($rows) . ' relationships.';
    }
  }
  $content .= theme_table(array(
    'header' => $headers,
    'rows' => count($rows) > 0 ? $page_items[$current_page] : array(),
    'attributes' => array(
      'id' => 'sbo--relationship-table',
    ),
    'sticky' => FALSE,
    'caption' => '',
    'colgroups' => array(),
    'empty' => $settings['empty'],
  ));

  $element[0] = array(
    '#type' => 'markup',
    '#markup' => $content . $pager,
  );
}