Adding md5checksum field

tripal_chado/includes/fields/chado_feature__md5checksum.inc

@@ -0,0 +1,146 @@
+<?php
+
+class chado_feature__md5checksum  extends TripalField {
+
+  /**
+   * @see TripalField::field_info()
+   */
+  function field_info() {
+    return array(
+      'label' => t('Sequence MD5 checksum'),
+      'description' => t('A field for generating MD5 checksum for a sequence.'),
+      'default_widget' => 'chado_feature__md5checksum_widget',
+      'default_formatter' => 'chado_feature__md5checksum_formatter',
+      'settings' => array(),
+      'storage' => array(
+        'type' => 'field_chado_storage',
+        'module' => 'tripal_chado',
+        'active' => TRUE
+      ),
+    );
+  }
+
+  /**
+   * @see TripalField::attach_info()
+   */
+  function attach_info($entity_type, $bundle, $settings) {
+    $field_info = array();
+
+    $table_name = $settings['data_table'];
+    $type_table = $settings['type_table'];
+    $type_field = $settings['field'];
+    $cv_id      = $settings['cv_id'];
+    $cvterm_id  = $settings['cvterm_id'];
+
+    if ($table_name == 'feature') {
+      $field_info = array(
+        'field_name' => $table_name . '__md5checksum',
+        'field_type' => 'chado_feature__md5checksum',
+        'widget_type' => 'chado_feature__md5checksum_widget',
+        'description' => 'The MD5 checksum for the sequence.',
+        'label' => 'The Sequence MD5 Checksum',
+        'is_required' => 0,
+        'storage' => 'field_chado_storage',
+        'widget_settings' => array(
+          'display_label' => 1,
+          'md5_fieldname' => 'feature__md5checksum',
+        ),
+        'field_settings' => array(
+          'chado_table' => 'feature',
+          'chado_column' => 'md5checksum',
+          'semantic_web' => array(
+            'name' => 'md5_checksum',
+            'accession' => 'md5_checksum',
+            'ns' => 'local',
+            'nsurl' => '',
+          ),
+        ),
+      );
+    }
+    return $field_info;
+  }
+
+  /**
+   * @see TripalField::widget_info()
+   */
+  function widget_info() {
+    return array(
+      'label' => t('MD5 Checksum'),
+      'field types' => array('chado_feature__md5checksum'),
+    );
+  }
+
+  /**
+   * @see TripalField::formatter_info()
+   */
+  function formatter_info() {
+    return array(
+      'label' => t('MD5 Checksum'),
+      'field types' => array('chado_feature__md5checksum'),
+      'settings' => array(
+      ),
+    );
+  }
+
+  /**
+   * @see TripalField::formatter_view()
+   */
+  function formatter_view(&$element, $entity_type, $entity, $field,
+      $instance, $langcode, $items, $display) {
+    foreach ($items as $delta => $item) {
+      $content = key_exists('value', $item) ? $item['value'] : '';
+      $element[$delta] = array(
+        // We create a render array to produce the desired markup,
+        '#type' => 'markup',
+        '#markup' => $content,
+      );
+    }
+  }
+
+  /**
+   * @see TripalField::widget_form()
+   */
+  function widget_form(&$widget, $form, $form_state, $field, $instance, $langcode, $items, $delta, $element) {
+    $settings = $field['settings'];
+    $field_name = $field['field_name'];
+    $field_type = $field['type'];
+    $field_table = $field['settings']['chado_table'];
+    $field_column = $field['settings']['chado_column'];
+
+    $widget['value'] = array(
+      '#type' => 'value',
+      '#value' => $items[0]['value'],
+    );
+    $widget['feature__md5checksum'] = array(
+      '#type' => 'value',
+      '#value' => $items[0]['value'],
+      '#element_validate' => array('chado_feature__md5checksum_widget_validate'),
+    );
+  }
+
+}
+
+/**
+ * Callback function for validating the chado_feature__md5checksum_widget.
+ */
+function chado_feature__md5checksum_widget_validate($element, &$form_state) {
+  $field_name = $element['#parents'][0];
+  $field = $form_state['field'][$field_name]['und']['field'];
+  $settings = $field['settings'];
+  $field_name = $field['field_name'];
+  $field_type = $field['type'];
+  $field_table = $field['settings']['chado_table'];
+  $field_column = $field['settings']['chado_column'];
+
+  // Calculate the md5 checksum for the sequence only if md5 box is checked and
+  // the residues exist.
+  $residues = tripal_chado_get_field_form_values('feature__residues', $form_state, 0, 'feature__residues');
+  if ($residues) {
+    $residues = preg_replace('/\s/', '', $residues);
+    tripal_chado_set_field_form_values($field_name, $form_state, md5($residues), 0, 'feature__md5checksum');
+  }
+  else {
+    // Otherwise, remove the md5 value
+    tripal_chado_set_field_form_values($field_name, $form_state, '__NULL__', 0, $field_table . '__md5checksum');
+  }
+}