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@@ -603,82 +603,125 @@ function tripal_chado_views_views_data_tripal_views_tables($data) {
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* Used to add Chado <-> Node Joins & Relationships
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* since you need to add to the $data['node'] to do this
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*
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+ * @see https://api.drupal.org/api/views/views.api.php/function/hook_views_data/7.x-3.x
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+ *
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* @ingroup tripal_chado_views
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*/
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function tripal_chado_views_views_data_alter(&$data) {
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- // ADD IN NODE JOINS & RELATIONSHIPS
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- // D7 @todo: Create custom handler to allow join from Node => Base (ie: organism)
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+ // ADD IN ENTITIES JOINS & RELATIONSHIPS
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+ // D7 @todo: Create custom handler to allow join from Entity => Base (ie: organism)
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// with the addition of a single relationship
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// D7 @todo: Create custom handler to allow join from Base (ie: organism)
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// with the addition of a single relationship
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- // D7 @todo: Add support for Mview <-> Node joins and relationships
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- $tvi_query = db_query('SELECT * FROM {tripal_views} WHERE base_table=1');
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- foreach ($tvi_query as $tvi_row) {
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-
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- //ids we'll use for queries
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- $setup_id = $tvi_row->setup_id;
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- $base_table = $tvi_row->table_name;
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- $linker_table = 'chado_' . $base_table;
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- $base_title = ucwords(str_replace('_', ' ', $base_table));
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-
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- // add in joins to the node tables if the Chado schema is local
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+ // D7 @todo: Add support for Mview <-> Entity joins and relationships
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+ $bundle_query = db_select('chado_bundle', 'CB');
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+ $bundle_query->fields('CB', array('bundle_id', 'data_table'));
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+ $bundle_query->join('tripal_bundle', 'TB', 'CB.bundle_id = TB.id');
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+ $bundle_query->fields('TB', array('name', 'label'));
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+ $bundle_query->join('tripal_term', 'TT', 'TB.term_id = TT.id');
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+ $bundle_query->fields('TT', array('accession'));
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+ $bundle_query->join('tripal_vocab', 'TV', 'TT.vocab_id = TV.id');
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+ $bundle_query->fields('TV', array('vocabulary'));
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+ $bundles = $bundle_query->execute();
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+ // Look for the record ID in the appropriate chado table.
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+ foreach ($bundles as $bundle) {
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+ // Ids we'll use for queries.
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+ // Ex.: 'stock'.
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+ $base_table = $bundle->data_table;
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+ // Ex.: 'stock_id'.
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+ $base_id_field = $base_table . '_id';
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+ // Ex.:'Chado Stock'.
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+ $base_table_label = 'Chado ' . ucwords(str_replace('_', ' ', $base_table));
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+ // Ex.: 'chado_bio_data_21'.
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+ $linker_table = 'chado_' . $bundle->name;
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+ // Ex.: 'Germplasm Accession'
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+ $bundle_label = $bundle->label;
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+ // Ex.: 'CO_010__0000044'
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+ $bundle_internal_name = $bundle->vocabulary . '__' . $bundle->accession;
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+
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+ // Add in joins to the tripal_entity tables if the Chado schema is local.
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$is_local = isset($GLOBALS["chado_is_local"]) && $GLOBALS["chado_is_local"];
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if ($is_local) {
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- // if a node linking table exists then add in the joins
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if (db_table_exists($linker_table)) {
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-
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- // Adds content (node) fields to chado base table field lists automatically
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- $data['node']['table']['join'][$linker_table] = [
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- 'left_field' => 'nid',
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- 'field' => 'nid',
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- ];
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- $data[$linker_table]['table']['join'][$base_table] = [
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- 'left_field' => $base_table . '_id',
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- 'field' => $base_table . '_id',
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- ];
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- $data['node']['table']['join'][$base_table] = [
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- 'left_table' => $linker_table,
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- 'left_field' => 'nid',
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- 'field' => 'nid',
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- ];
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-
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- // Adds in a chado base table => node relationship
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- // This allows controlled joining to multiple nodes per line
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- // Use Case: link to feature and organism nodes on a feature listing
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+ // Adds in a chado base table => entity relationship.
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+ // This allows controlled joining to multiple entities per line.
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+ // Use Case: link to feature and organism entities on a feature listing.
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// D7 todo: a custom relationship handler to get from feature.organism_id => organism node
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- // without 1st needing to add relationship to organism table
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- $base_field = $base_table . '_id';
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- $data[$linker_table][$base_field] = [
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- 'group' => $base_title,
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- 'title' => $base_title . 'Node',
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- 'help' => t("Links @base_title to it's node.", ['@base_title' => $base_title]),
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- 'relationship' => [
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+ // without 1st needing to add relationship to organism table.
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+ $data[$linker_table]['table']['join'][$base_table] = array(
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+ 'left_field' => $base_id_field,
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+ 'field' => 'record_id',
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+ );
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+ $data[$linker_table]['table']['join']['tripal_entity'] = array(
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+ 'left_field' => 'id',
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+ 'field' => 'entity_id',
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+ );
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+ $data[$linker_table][$base_id_field] = array(
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+ 'group' => $base_table_label,
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+ 'title' => $base_table_label,
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+ 'help' => t(
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+ "Links @base_table_label to its Tripal Content Type '@bundle_label'.",
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+ array(
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+ '@base_table_label' => $base_table_label,
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+ '@bundle_label' => $bundle_label,
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+ )
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+ ),
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+ 'relationship' => array(
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'handler' => 'views_handler_relationship',
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- 'title' => t("@base_title => Node", ['@base_title' => $base_title]),
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- 'label' => t("@base_title => Node", ['@base_title' => $base_title]),
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- 'real field' => 'nid',
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- 'base' => 'node',
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- 'base field' => 'nid',
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- ],
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- ];
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+ 'title' => t(
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+ "@base_table_label => @bundle_label",
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+ array(
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+ '@base_table_label' => $base_table_label,
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+ '@bundle_label' => $bundle_label,
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+ )
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+ ),
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+ 'label' => t(
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+ "@base_table_label => @bundle_label",
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+ array(
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+ '@base_table_label' => $base_table_label,
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+ '@bundle_label' => $bundle_label,
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+ )
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+ ),
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+ 'real field' => 'entity_id',
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+ 'base' => 'tripal_entity',
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+ 'base field' => 'id'
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+ ),
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+ );
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- // Add Chado fields to a node-based view
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- // This will only be done with relationships
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- $base_field = $base_table . '_id';
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- $data['node'][$base_field] = [
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- 'group' => $base_title,
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- 'title' => $base_title,
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- 'help' => t("Links node to chado @base_title.", ['@base_title' => $base_title]),
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- 'relationship' => [
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+ // Add Chado fields to a entity-based view
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+ // This will only be done with relationships.
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+ $data[$bundle_internal_name][$base_id_field] = array(
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+ 'group' => $bundle_label,
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+ 'title' => $bundle_label,
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+ 'help' => t(
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+ "Links @bundle_label to @base_table_label.",
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+ array(
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+ '@bundle_label' => $bundle_label,
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+ '@base_table_label' => $base_table_label,
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+ )
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+ ),
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+ 'relationship' => array(
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'handler' => 'views_handler_relationship',
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- 'title' => t("Node => @base_title", ['@base_title' => $base_title]),
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- 'label' => t("Node => @base_title", ['@base_title' => $base_title]),
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- 'real field' => 'nid',
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- 'base' => $linker_table,
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- 'base field' => 'nid',
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- ],
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- ];
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+ 'title' => t(
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+ "@bundle_label => @base_table_label",
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+ array(
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+ '@bundle_label' => $bundle_label,
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+ '@base_table_label' => $base_table_label,
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+ )
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+ ),
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+ 'label' => t(
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+ "@bundle_label => @base_table_label",
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+ array(
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+ '@bundle_label' => $bundle_label,
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+ '@base_table_label' => $base_table_label,
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+ )
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+ ),
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+ 'real field' => 'id',
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+ 'base' => $base_table,
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+ 'base field' => $base_id_field
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+ ),
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+ );
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}
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}
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Lacey-Anne Sanderson