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@@ -1,190 +1,6 @@
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<?php
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-/**
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- * Provide a data listing for tripal entites (ie: biological data).
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- *
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- * This function is a callback in a menu item which is set in the
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- * TripalEntityUIController class.
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- */
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-function tripal_entities_content_view() {
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- // Retrieve our data listing form and render it.
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- $form = drupal_get_form('tripal_entities_content_overview_form');
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- $output = drupal_render($form);
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- // Set the breadcrumb.
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- $breadcrumb = array();
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- $breadcrumb[] = l('Home', '<front>');
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- $breadcrumb[] = l('Administration', 'admin');
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- drupal_set_breadcrumb($breadcrumb);
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-
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- return $output;
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-
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-}
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-
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-/**
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- * Display a listing of Tripal entities.
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- *
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- * @TODO Filters and bulk operations needed to be added to this form.
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- *
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- * @param array $form
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- * @param array $form_state
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- * @return
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- * A form array describing this listing to the Form API.
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- */
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-function tripal_entities_content_overview_form($form, &$form_state) {
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-
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- // Set the title to be informative (defaults to content for some reason).
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- drupal_set_title('Tripal Content');
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-
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- // Retrieve a pages list of all tripal entitles (ie: biological data).
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- // This will return the 25 most recently created entities.
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- $entities = db_select('tripal_entity', 'td')
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- ->fields('td')
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- ->orderBy('created', 'DESC')
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- ->range(0,25)
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- ->execute();
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-
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- $headers = array('Title', 'Vocabulary', 'Term', 'Author', 'Status', 'Updated', 'Operations');
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- $rows = array();
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-
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- // For each entity retrieved add a row to the data listing.
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- while ($entity = $entities->fetchObject()) {
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-
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- // Get the term
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- $term = entity_load('TripalTerm', array('id' => $entity->term_id));
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- $term = reset($term);
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- $vocab = entity_load('TripalVocab', array('id' => $term->vocab_id));
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- $vocab = reset($vocab);
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-
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- // Retrieve details about the user who created this data.
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- $author = user_load($entity->uid);
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-
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- // Add information to the table.
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- $rows[] = array(
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- l($entity->title, 'bio-data/' . $entity->id),
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- $vocab->namespace,
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- $term->name,
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- l($author->name, 'user/' . $entity->uid),
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- $entity->status == 1 ? 'published' : 'unpublished',
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- format_date($entity->changed, 'short'),
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- l('edit', 'bio-data/' . $entity->id . '/edit') . ' ' .
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- l('delete', 'bio-data/' . $entity->id . '/delete')
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- );
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- }
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-
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- // If there are no entites created yet then add a message to the table to
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- // provide guidance to administrators.
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- if (empty($rows)) {
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- $rows[] = array(
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- array(
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- 'data' => t('No Tripal content available.'),
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- 'colspan' => 7
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- )
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- );
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- }
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-
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- // Render the data listing.
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- $table_vars = array(
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- 'header' => $headers,
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- 'rows' => $rows,
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- 'attributes' => array(),
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- 'sticky' => TRUE,
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- 'caption' => '',
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- 'colgroups' => array(),
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- 'empty' => '',
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- );
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- $form['results'] = array(
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- '#type' => 'markup',
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- '#markup' => theme('table', $table_vars),
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- );
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-
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- return $form;
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-}
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-
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-/**
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- * Form for creating tripal data types.
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- *
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- * This form is available on the menu at Admin >> Structure >> Biological Data
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- * Types. It requires that a module implmennt the vocabulary storage. Tripal
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- * knows which vocabulary storage methods are available when a module
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- * implements the hook_vocab_storage_info() hook.
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- *
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- */
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-function tripal_entities_admin_add_type_form($form, &$form_state) {
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-
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- // TODO: we need some sort of administrative interface that lets the user
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- // switch to the desired vocabulary type. For now, we'll just use the
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- // first one in the list.
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- $stores = module_invoke_all('vocab_storage_info');
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- if (is_array($stores) and count($stores) > 0) {
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- $keys = array_keys($stores);
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- $module = $stores[$keys[0]]['module'];
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- $function = $module . '_vocab_select_term_form';
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- if (function_exists($function)) {
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- $form = $function($form, $form_state);
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- }
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- }
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- else {
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- tripal_set_message('A storage backend is not enabled for managing
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- the vocabulary terms used to create content. Please enable
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- a module that supports storage of vocabualary terms (e.g. tripal_chado)
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- and return to create new Tripal content types.', TRIPAL_NOTICE);
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- }
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- return $form;
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-}
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-/**
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- * Implements hook_validate() for the tripal_entities_admin_add_type_form.
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- *
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- */
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-function tripal_entities_admin_add_type_form_validate($form, &$form_state) {
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- // TODO: we need some sort of administrative interface that lets the user
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- // switch to the desired vocabulary type. For now, we'll just use the
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- // first one in the list.
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- $stores = module_invoke_all('vocab_storage_info');
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- if (is_array($stores) and count($stores) > 0) {
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- $keys = array_keys($stores);
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- $module = $stores[$keys[0]]['module'];
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- $function = $module . '_vocab_select_term_form_validate';
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- if (function_exists($function)) {
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- $function($form, $form_state);
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- }
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- }
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-}
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-/**
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- * Implements hook_submit() for the tripal_entities_admin_add_type_form.
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- *
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- * The storage backend must set the
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- *
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- */
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-function tripal_entities_admin_add_type_form_submit($form, &$form_state) {
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- $namespace = '';
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- $term_id = '';
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- if (array_key_exists('storage', $form_state)) {
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- $storage = $form_state['storage'];
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- $namespace = array_key_exists('namespace', $storage) ? $storage['namespace'] : '';
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- $term_id = array_key_exists('term_id', $storage) ? $storage['term_id'] : '';
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- $term_name = array_key_exists('term_name', $storage) ? $storage['term_name'] : '';
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-
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- // Before we try to add this type, check to see if it already exists
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- // as a bundle.
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- $term = tripal_load_term_entity($namespace, $term_id);
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- if (!$term) {
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- $error = '';
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- $success = tripal_create_bundle($namespace, $term_id, $term_name, $error);
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- if (!$success) {
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- drupal_set_message($error, 'error');
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- $form_state['redirect'] = "admin/structure/bio-data";
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- }
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- else {
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- drupal_set_message('New biological data type created. Fields are added automatically to this type.');
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- $form_state['redirect'] = "admin/structure/bio-data";
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- }
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- }
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- else {
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- drupal_set_message('This type already exists.', 'warning');
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- }
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- }
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-}
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Stephen Ficklin