'', 'chado_column' => '', 'base_table' => '', ); // Provide a list of instance specific settings. These can be access within // the instanceSettingsForm. When the instanceSettingsForm is submitted // then Drupal with automatically change these settings for the instnace. // It is recommended to put settings at the instance level whenever possible. public static $instance_settings = array(); // Set this to the name of the storage backend that by default will support // this field. public static $storage = 'tripal_no_storage'; // The default widget for this field. public static $default_widget = 'chado_linker__contact_widget'; // The default formatter for this field. public static $default_formatter = 'chado_linker__contact_formatter'; // -------------------------------------------------------------------------- // PROTECTED CLASS MEMBERS -- DO NOT OVERRIDE // -------------------------------------------------------------------------- // An array containing details about the field. The format of this array // is the same as that returned by field_info_fields() protected $field; // An array containing details about an instance of the field. A field does // not have to have an instance. But if dealing with an instance (such as // when using the widgetForm, formatterSettingsForm, etc.) it should be set. protected $instance; /** * * @see TripalField::validate() */ public function validate($entity_type, $entity, $field, $items, &$errors) { } /** * * @see TripalField::load() */ public function load($entity, $details = array()) { $record = $details['record']; $field_name = $this->field['field_name']; $field_type = $this->field['type']; $field_table = $this->field['settings']['chado_table']; $field_column = $this->field['settings']['chado_column']; // Get the FK that links to the base record. $schema = chado_get_schema($field_table); $base_table = $details['record']->tablename; $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(), 'chado-' . $field_table . '__' . $pkey => '', 'chado-' . $field_table . '__' . $fkey_lcolumn => '', 'chado-' . $field_table . '__' . 'contact_id' => '', // Ignore the synonym_sgml column for now. ); $linker_table = $base_table . '_contact'; $options = array( 'return_array' => 1, 'include_fk' => array( 'contact_id' => array( 'type_id' => array( 'dbxref_id' => array( 'db_id' => TRUE, ), ), ), $fkey_lcolumn => TRUE, ), ); $record = chado_expand_var($record, 'table', $linker_table, $options); $contact_linkers = $record->$linker_table; if ($contact_linkers) { foreach ($contact_linkers as $i => $contact_linker) { $contact = $contact_linker->contact_id; $entity->{$field_name}['und'][$i] = array( 'value' => array( 'type' => $contact->type_id ? $contact->type_id->name : '', 'name' => $contact->name, 'description' => $contact->description, ), // Add in the semantic web settings. This array is expected by // other Tripal modules that handle semantic web for fields. 'semantic_web' => array( 'type' => $contact->type_id ? $contact->type_id->dbxref_id->db_id->name . ':' . $contact->type_id->dbxref_id->accession : '', 'name' => tripal_get_chado_semweb_term('contact', 'name'), 'description' => tripal_get_chado_semweb_term('contact', 'description'), ), // Add in subfield mapping to Chado tables. This is used by the // chado_field_storage for performing queries on sub element values. // It should be a comma-separated list (no spacing) of the field names // as foreign keys are followed starting from the Chado table to which // this field maps. 'chado_mapping' => array( 'type' => 'type_id,name', 'name' => 'contact_id,name', 'description' => 'contact_id,name' ), 'chado-' . $field_table . '__' . $pkey => $contact_linker->$pkey, 'chado-' . $field_table . '__' . $fkey_lcolumn => $contact_linker->$fkey_lcolumn->$fkey_lcolumn, 'chado-' . $field_table . '__' . 'contact_id' => $contact->contact_id ); if (property_exists($contact, 'entity_id')) { $entity->{$field_name}['und'][$i]['value']['entity'] = 'TripalEntity:' . $contact->entity_id; } } } } /** * * @see TripalField::settingsForm() */ public function settingsForm($has_data) { } /** * * @param unknown $form * @param unknown $form_state */ public function settingsFormValidate($form, &$form_state) { } /** * * @see TripalField::instanceSettingsForm() */ public function instanceSettingsForm() { } /** * * @see TripalField::instanceSettingsFormValidate() */ public function instanceSettingsFormValidate($form, &$form_state) { } } /** * An Ajax callback for the pub widget. */ function chado_linker__contact_widget_form_ajax_callback($form, $form_state) { $field_name = $form_state['triggering_element']['#parents'][0]; $delta = $form_state['triggering_element']['#parents'][2]; return $form[$field_name]['und'][$delta]; } /** * Theme function for the pub widget. * * @param $variables */ function theme_chado_linker__contact_widget($variables) { $element = $variables['element']; // These two fields were added to the widget to help identify the fields // for layout. $table_name = $element['#table_name']; $fkey = $element['#fkey_field']; $layout = "
" . drupal_render($element['name']) . "
"; return $layout; }