Related topics

File

tripal_cv/includes/obo_loader.inc, line 216

Tripal Ontology Loader

Code

function tripal_cv_load_obo_v1_2_url($obo_name, $url, $jobid = NULL, $is_new = TRUE) {

  $newcvs = array();

  // first download the OBO
  $temp = tempnam(sys_get_temp_dir(), 'obo_');
  print "Downloading URL $url, saving to $temp\n";
  $url_fh = fopen($url, "r");
  $obo_fh = fopen($temp, "w");
  if (!$url_fh) {
    tripal_cv_obo_quiterror("Unable to download the remote OBO file at $url. Could a firewall be blocking outgoing connections? " .
    " if you are unable to download the file you may manually downlod the OBO file and use the web interface to " .
      " specify the location of the file on your server.");

  }
  while (!feof($url_fh)) {
    fwrite($obo_fh, fread($url_fh, 255), 255);
  }
  fclose($url_fh);
  fclose($obo_fh);

  // second, parse the OBO
  tripal_cv_load_obo_v1_2($temp, $jobid, $newcvs);

  // now remove the temp file
  unlink($temp);

  if ($is_new) {
    tripal_cv_add_obo_ref($obo_name, $url);
  }

  // update the cvtermpath table
  tripal_cv_load_update_cvtermpath($newcvs, $jobid);

  print "Done\n";
}