Removed unused code from analysis module related to taxonomy and reindexing. We may want to put those back but for now they aren't being used.

tripal_analysis/tripal_analysis.module

@@ -928,103 +928,6 @@ function tripal_analyses_cleanup($dummy = NULL, $job_id = NULL) {
   return '';
 }
 
-/**
-function tripal_analysis_reindex_features ($analysis_id = NULL, $job_id = NULL){
-  $i = 0;
-
-  // if the caller provided a analysis_id then get all of the features
-  // associated with the analysis. Otherwise get all sequences associated
-  // with all libraries.
-  if(!$analysis_id){
-    $sql = "SELECT Analysis_id, Feature_id ".
-          "FROM {Analysisfeature} ".
-          "ORDER BY analysis_id";
-    $previous_db = tripal_db_set_active('chado');  // use chado database
-    $results = db_query($sql);
-    tripal_db_set_active($previous_db);  // now use drupal database
-  } else {
-    $sql = "SELECT Analysis_id, Feature_id ".
-             "FROM {Analysisfeature} ".
-             "WHERE analysis_id = %d";
-             "ORDER BY analysis_id";
-    $previous_db = tripal_db_set_active('chado');  // use chado database
-    $results = db_query($sql,$analysis_id);
-    tripal_db_set_active($previous_db);  // now use drupal database
-  }
-
-  // load into ids array
-  $count = 0;
-  $ids = array();
-  while($id = db_fetch_object($results)){
-    $ids[$count] = $id->feature_id;
-    $count++;
-  }
-
-  $interval = intval($count * 0.01);
-  foreach($ids as $feature_id){
-    // update the job status every 1% features
-    if($job_id and $i % interval == 0){
-      tripal_job_set_progress($job_id,intval(($i/$count)*100));
-    }
-    tripal_feature_sync_feature ($feature_id);
-    $i++;
-  }
-} */
-
-/**
-function tripal_analysis_taxonify_features ($analysis_id = NULL, $job_id = NULL){
-  $i = 0;
-
-  // if the caller provided a analysis_id then get all of the features
-  // associated with the analysis. Otherwise get all sequences assoicated
-  // with all libraries.
-  if(!$analysis_id){
-    $sql = "SELECT Analysis_id, Feature_id ".
-          "FROM {Analysisfeature} ".
-          "ORDER BY analysis_id";
-    $previous_db = tripal_db_set_active('chado');  // use chado database
-    $results = db_query($sql);
-    tripal_db_set_active($previous_db);  // now use drupal database
-  } else {
-    $sql = "SELECT Analysis_id, Feature_id ".
-             "FROM {Analysisfeature} ".
-             "WHERE analysis_id = %d";
-             "ORDER BY analysis_id";
-    $previous_db = tripal_db_set_active('chado');  // use chado database
-    $results = db_query($sql,$analysis_id);
-    tripal_db_set_active($previous_db);  // now use drupal database
-  }
-
-  // load into ids array
-  $count = 0;
-  $ids = array();
-  while($id = db_fetch_object($results)){
-    $ids[$count] = $id->feature_id;
-    $count++;
-  }
-
-  // make sure our vocabularies are set before proceeding
-  tripal_feature_set_vocabulary();
-
-  // use this SQL for getting the nodes
-  $nsql =  "SELECT * FROM {chado_feature} CF ".
-            "  INNER JOIN {node} N ON N.nid = CF.nid ".
-            "WHERE feature_id = %d";
-
-  // iterate through the features and set the taxonomy
-  $interval = intval($count * 0.01);
-  foreach($ids as $feature_id){
-    // update the job status every 1% features
-    if($job_id and $i % $interval == 0){
-      tripal_job_set_progress($job_id,intval(($i/$count)*100));
-    }
-    $node = db_fetch_object(db_query($nsql,$feature_id));
-    tripal_feature_set_taxonomy($node,$feature_id);
-    $i++;
-  }
-}
- */
-
 /**
  * Implements hook_views_api()
  * Purpose: Essentially this hook tells drupal that there is views support for