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 column that links to the base table. $chado_table = $this->field['settings']['chado_table']; $base_table = $this->field['settings']['base_table']; $schema = chado_get_schema($chado_table); $pkey = $schema['primary key'][0]; $fkeys = array_values($schema['foreign keys'][$base_table]['columns']); $fkey = $fkeys[0]; // Get the field defaults. $record_id = ''; $fkey_value = $element['#entity']->chado_record_id; $dbxref_id = ''; $db_id = ''; $accession = ''; $version = ''; $description = ''; // If the field already has a value then it will come through the $items // array. This happens when editing an existing record. if (count($items) > 0 and array_key_exists($delta, $items)) { $record_id = tripal_get_field_item_keyval($items, $delta, 'chado-' . $field_table . '__' . $pkey, $record_id); $fkey_value = tripal_get_field_item_keyval($items, $delta, 'chado-' . $field_table . '__' . $fkey, $fkey_value); $dbxref_id = tripal_get_field_item_keyval($items, $delta, 'chado-' . $field_table . '__dbxref_id', $dbxref_id); $db_id = tripal_get_field_item_keyval($items, $delta, 'db_id', $db_id); $accession = tripal_get_field_item_keyval($items, $delta, 'accession', $accession); $version = tripal_get_field_item_keyval($items, $delta, 'version', $version); $description = tripal_get_field_item_keyval($items, $delta, 'description', $description); } // Check $form_state['values'] to see if an AJAX call set the values. if (array_key_exists('values', $form_state) and array_key_exists($delta, $form_state['values'])) { $record_id = $form_state['values'][$field_name]['und'][$delta][$field_table . '__' . $pkey]; $fkey_value = $form_state['values'][$field_name]['und'][$delta][$field_table . '__' . $fkey]; $dbxref_id = $form_state['values'][$field_name]['und'][$delta][$field_table . '__dbxref_id']; $db_id = $form_state['values'][$field_name]['und'][$delta]['db_id']; $accession = $form_state['values'][$field_name]['und'][$delta]['accession']; $version = $form_state['values'][$field_name]['und'][$delta]['version']; $description = $form_state['values'][$field_name]['und'][$delta]['description']; } $schema = chado_get_schema('dbxref'); $options = tripal_get_db_select_options(); $widget['#table_name'] = $chado_table; $widget['#fkey_field'] = $fkey; //$widget['#element_validate'] = array('sbo__database_cross_reference_widget_validate'); $widget['#theme'] = 'sbo__database_cross_reference_widget'; $widget['#prefix'] = ""; $widget['#suffix'] = ""; $widget['value'] = array( '#type' => 'value', '#value' => array_key_exists($delta, $items) ? $items[$delta]['value'] : '', ); $widget['chado-' . $field_table . '__' . $pkey] = array( '#type' => 'value', '#default_value' => $record_id, ); $widget['chado-' . $field_table . '__' . $fkey] = array( '#type' => 'value', '#default_value' => $fkey_value, ); $widget['chado-' . $field_table . '__dbxref_id'] = array( '#type' => 'value', '#default_value' => $dbxref_id, ); $widget['dbxref_id'] = array( '#type' => 'value', '#default_value' => $dbxref_id, ); $widget['db_id'] = array( '#type' => 'select', '#title' => t('Database'), '#options' => $options, '#required' => $element['#required'], '#default_value' => $db_id, '#ajax' => array( 'callback' => "sbo__database_cross_reference_widget_form_ajax_callback", 'wrapper' => "$field_name-dbxref--db-id-$delta", 'effect' => 'fade', 'method' => 'replace' ), ); $widget['accession'] = array( '#type' => 'textfield', '#title' => t('Accession'), '#default_value' => $accession, '#required' => $element['#required'], '#maxlength' => array_key_exists('length', $schema['fields']['accession']) ? $schema['fields']['accession']['length'] : 255, '#size' => 15, '#autocomplete_path' => 'admin/tripal/storage/chado/auto_name/dbxref/' . $db_id, '#ajax' => array( 'callback' => "sbo__database_cross_reference_widget_form_ajax_callback", 'wrapper' => "$field_name-dbxref--db-id-$delta", 'effect' => 'fade', 'method' => 'replace' ), '#disabled' => $db_id ? FALSE : TRUE, ); $widget['version'] = array( '#type' => 'textfield', '#title' => t('Version'), '#default_value' => $version, '#maxlength' => array_key_exists('length', $schema['fields']['version']) ? $schema['fields']['version']['length'] : 255, '#size' => 5, '#disabled' => $db_id ? FALSE : TRUE, ); $widget['description'] = array( '#type' => 'textfield', '#title' => t('Description'), '#default_value' => $description, '#size' => 20, '#disabled' => $db_id ? FALSE : TRUE, ); if (!$db_id) { $widget['links'] = array( '#type' => 'item', '#markup' => l('Add a database', 'admin/tripal/legacy/tripal_db/add', array('attributes' => array('target' => '_blank'))) ); } } /** * Performs validation of the widgetForm. * * Use this validate to ensure that form values are entered correctly. Note * this is different from the validate() function which ensures that the * field data meets expectations. * * @param $form * @param $form_state */ public function validate($form, &$form_state, $entity_type, $entity, $langcode, $delta) { $field_name = $this->field['field_name']; $field_type = $this->field['type']; $table_name = $this->field['settings']['chado_table']; $field_table = $this->field['settings']['chado_table']; $field_column = $this->field['settings']['chado_column']; $base_table = $this->field['settings']['base_table']; $schema = chado_get_schema($table_name); $pkey = $schema['primary key'][0]; $fkeys = array_values($schema['foreign keys'][$base_table]['columns']); $fkey = $fkeys[0]; // Get the field values. foreach ($items as $delta => $values) { // Get the field values. $dbxref_id = $values['chado-' . $field_table . '__dbxref_id']; $db_id = $values['db_id']; $accession = $values['accession']; $version = $values['version']; $description = $values['description']; // Make sure that if a database ID is provided that an accession is also // provided. Here we use the form_set_error function rather than the // form_error function because the form_error will add a red_highlight // around all of the fields in the fieldset which is confusing as it's not // clear to the user what field is required and which isn't. Therefore, // we borrow the code from the 'form_error' function and append the field // so that the proper field is highlighted on error. if (!$db_id and $accession) { $errors[$field_name][$delta]['und'][] = array( 'message' => t("A database and the accession must both be provided."), 'error' => 'sbo__database_cross_reference', ); } if ($db_id and !$accession) { $errors[$field_name][$delta]['und'][] = array( 'message' => t("A database and the accession must both be provided."), 'error' => 'sbo__database_cross_reference', ); } if (!$db_id and !$accession and ($version or $description)) { $errors[$field_name][$delta]['und'][] = array( 'message' => t("A database and the accession must both be provided."), 'error' => 'sbo__database_cross_reference', ); } } } /** * * @see TripalFieldWidget::submit() */ public function submit($form, &$form_state, $entity_type, $entity, $langcode, $delta) { $field_name = $this->field['field_name']; $field_type = $this->field['type']; $table_name = $this->field['settings']['chado_table']; $field_table = $this->field['settings']['chado_table']; $field_column = $this->field['settings']['chado_column']; $base_table = $this->field['settings']['base_table']; $schema = chado_get_schema($table_name); $pkey = $schema['primary key'][0]; $fkeys = array_values($schema['foreign keys'][$base_table]['columns']); $fkey = $fkeys[0]; // Get the field values. $dbxref_id = isset($form_state['values'][$field_name][$langcode][$delta]['chado-' . $field_table . '__dbxref_id']) ? $form_state['values'][$field_name][$langcode][$delta]['chado-' . $field_table . '__dbxref_id'] : ''; $db_id = isset($form_state['values'][$field_name][$langcode][$delta]['db_id']) ? $form_state['values'][$field_name][$langcode][$delta]['db_id'] : ''; $accession = isset($form_state['values'][$field_name][$langcode][$delta]['accession']) ? $form_state['values'][$field_name][$langcode][$delta]['accession'] : ''; $version = isset($form_state['values'][$field_name][$langcode][$delta]['version']) ? $form_state['values'][$field_name][$langcode][$delta]['version'] : ''; $description = isset($form_state['values'][$field_name][$langcode][$delta]['description']) ? $form_state['values'][$field_name][$langcode][$delta]['description'] : ''; // If the dbxref_id does not match the db_id + accession then the user // has selected a new dbxref record and we need to update the hidden // value accordingly. if ($db_id and $accession) { $dbxref = chado_generate_var('dbxref', array('db_id' => $db_id, 'accession' => $accession)); if ($dbxref and $dbxref->dbxref_id != $dbxref_id) { $form_state['values'][$field_name][$langcode][$delta]['chado-' . $table_name . '__dbxref_id'] = $dbxref->dbxref_id; $form_state['values'][$field_name][$langcode][$delta]['dbxref_id'] = $dbxref->dbxref_id; } } // If the db_id and accession are not set, then remove the linker FK // value to the base table, but leave the primary key so the record // can be deleted. else { $form_state['values'][$field_name][$langcode][$delta]['chado-' . $table_name . '__' . $fkey] = ''; $form_state['values'][$field_name][$langcode][$delta]['chado-' . $table_name . '__dbxref_id'] = ''; } } }