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File

tripal_feature/includes/indexFeatures.inc, line 61

@todo Add file header description

Code

function tripal_features_reindex($max_sync, $job_id = NULL) {
  $i = 0;

  // We register a shutdown function to ensure that the nodes
  // that are indexed will have proper entries in the search_totals
  // table.  Without these entries, the searching doesn't work
  // properly. This function may run for quite a while since
  // it must calculate the sum of the scores of all entries in
  // the search_index table.  In the case of common words like
  // 'contig', this will take quite a while
  register_shutdown_function('search_update_totals');

  // use this SQL statement to get the features that we're going to index. This
  // SQL statement is derived from the hook_search function in the Drupal API.
  // Essentially, this is the SQL statement that finds all nodes that need
  // reindexing, but adjusted to include the chado_feature
  $sql = "SELECT N.nid, N.title, CF.feature_id " .
    "FROM {node} N " .
    "  INNER JOIN {chado_feature} CF ON CF.nid = N.nid ";
  $results = db_query($sql);

  // load into ids array
  $count = 0;
  $chado_features = array();
  while ($chado_feature = db_fetch_object($results)) {
    $chado_features[$count] = $chado_feature;
    $count++;
  }

  // Iterate through features that need to be indexed
  $interval = intval($count * 0.01);
  if ($interval >= 0) {
    $interval = 1;
  }
  foreach ($chado_features as $chado_feature) {

    // update the job status every 1% features
    if ($job_id and $i % $interval == 0) {
      $prog = intval(($i / $count) * 100);
      tripal_job_set_progress($job_id, $prog);
      print "$prog%\n";
    }

    // sync only the max requested
    if ($max_sync and $i == $max_sync) {
      return '';
    }
    $i++;

    /**
     * tripal_feature_index_feature ($chado_feature->feature_id,$chado_feature->nid);
     * parsing all the features can cause memory overruns
     * we are not sure why PHP does not clean up the memory as it goes
     * to avoid this problem we will call this script through an
     * independent system call
     */

    $cmd = "php " . drupal_get_path('module', 'tripal_feature') . "/indexFeatures.php ";
    $cmd .= "-i $chado_feature->feature_id -n $chado_feature->nid ";

    # print "\t$cmd\n";
    # print "\tfeature id is $chado_feature->feature_id\n";
    # print "\tnid is $chado_feature->nid\n";
    # print "\n";

    system($cmd);
  }

  return '';
}