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GA_3.php
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<?php
/*
* GA_3.php
*
* Final database update and submission for the GA analysis
*
*/
include_once 'checkinstance.php';
elogrs( __FILE__ );
if ( ($_SESSION['userlevel'] != 2) &&
($_SESSION['userlevel'] != 3) &&
($_SESSION['userlevel'] != 4) &&
($_SESSION['userlevel'] != 5) ) // only data analyst and up
{
header('Location: index.php');
exit();
}
// Verify that job submission is ok now
include 'lib/motd.php';
if ( motd_isblocked() && ($_SESSION['userlevel'] < 4) )
{
header("Location: index.php");
exit();
}
// define( 'DEBUG', true );
include 'config.php';
include 'db.php';
include 'lib/utility.php';
include 'lib/payload_manager.php';
include 'lib/HPC_analysis.php';
include 'lib/file_writer.php';
include $class_dir . 'submit_local.php';
include $class_dir . 'submit_gfac.php';
include $class_dir . 'submit_airavata.php';
include_once $class_dir . 'priority.php';
// Create the payload manager and restore the data
$payload = new Payload_GA( $_SESSION );
$payload->restore();
// Create the HPC analysis agent and file writer
$HPC = new HPC_GA();
$file = new File_GA();
$filenames = array();
$HPCAnalysisRequestID = 0;
$files_ok = true; // Let's also make sure there weren't any problems writing the files
if ( $_SESSION[ 'separate_datasets' ] )
{
//echo "Payload\n<pre>";
//print_r( $payload->get() );
$dataset_count = $payload->get( 'datasetCount' );
priority( "GA", $dataset_count, $payload->get( 'job_parameters' ) );
for ( $ii = 0; $ii < $dataset_count; $ii++ )
{
$single = $payload->get_dataset( $ii );
$HPCAnalysisRequestID = $HPC->writeDB( $single );
$filenames[ $ii ] = $file->write( $single, $HPCAnalysisRequestID );
if ( $filenames[ $ii ] === false )
$files_ok = false;
else
{
// Write the xml file content to the db
$xml_content = mysqli_real_escape_string( $link, file_get_contents( $filenames[ $ii ] ) );
$edit_filename = $single[ 'dataset' ][ 0 ][ 'edit' ];
$experimentID = $_SESSION['request'][$ii]['experimentID'];
$query = "UPDATE HPCAnalysisRequest " .
"SET requestXMLfile = '$xml_content', " .
"experimentID = '$experimentID', " .
"editXMLFilename = '$edit_filename' " .
"WHERE HPCAnalysisRequestID = $HPCAnalysisRequestID ";
mysqli_query( $link, $query )
or die( "Query failed : $query<br />\n" . mysqli_error($link) );
}
}
}
else
{
//echo "not separate\n"; exit();
$missit_msg = '';
$globalfit = $payload->get();
priority( "GA-GF", $payload->get( 'datasetCount' ), $payload->get( 'job_parameters' ) );
$HPCAnalysisRequestID = $HPC->writeDB( $globalfit );
$filenames[ 0 ] = $file->write( $globalfit, $HPCAnalysisRequestID );
if ( $filenames[ 0 ] === false )
$files_ok = false;
else if ( $filenames[ 0 ] === '2DSA-IT-MISSING' )
{
$files_ok = false;
$missit_msg = "<br/><b>Global Fit without all needed 2DSA-IT models</b/>";
}
else
{
// Write the xml file content to the db
$xml_content = mysqli_real_escape_string( $link, file_get_contents( $filenames[ 0 ] ) );
$edit_filename = $globalfit['dataset'][0]['edit'];
$query = "UPDATE HPCAnalysisRequest " .
"SET requestXMLfile = '$xml_content', " .
"editXMLFilename = '$edit_filename' " .
"WHERE HPCAnalysisRequestID = $HPCAnalysisRequestID ";
mysqli_query( $link, $query )
or die("Query failed : $query<br />\n" . mysqli_error($link));
}
}
if ( $files_ok )
{
$output_msg = <<<HTML
<pre>
Thank you, your job was accepted and is currently processing. An
email will be sent to {$_SESSION[ 'submitter_email' ]} when the job is
completed.
HTML;
// EXEC COMMAND FOR TIGRE
if ( isset( $_SESSION[ 'cluster' ] ) )
{
$cluster = $_SESSION[ 'cluster' ][ 'shortname' ];
unset( $_SESSION[ 'cluster' ] );
if ( isset( $global_cluster_details )
&& is_array( $global_cluster_details )
&& array_key_exists( $cluster, $global_cluster_details )
&& array_key_exists( 'airavata', $global_cluster_details[$cluster] ) ) {
if ( $global_cluster_details[$cluster]['airavata' ] ) {
$job = new submit_airavata();
} else {
$job = new submit_local();
}
} else {
error_log( "$cluster not properly setup\n" );
$msg = "<br /><span class='message'>Configuration error: Unsupported cluster $cluster</span><br />\n";
echo $msg;
exit;
}
$save_cwd = getcwd(); // So we can come back to the current
// working directory later
//print_r( $filenames );echo "</pre>";
//exit();
foreach ( $filenames as $filename )
{
chdir( dirname( $filename ) );
$job-> clear();
$job-> parse_input( basename( $filename ) );
if ( ! DEBUG ) $job->submit();
$retval = $job->get_messages();
if ( ! empty( $retval ) )
{
$output_msg .= "<br /><span class='message'>Message from the queue...</span><br />\n" .
print_r( $retval, true ) . " <br />\n";
}
}
$job->close_transport();
chdir( $save_cwd );
}
$output_msg .= "</pre>\n";
}
else
{
$output_msg = <<<HTML
Thank you, there have been one or more problems writing the various files necessary
for job submission. Please contact your system administrator.
$missit_msg
HTML;
}
// Start displaying page
$page_title = 'GA Analysis Submitted';
include 'header.php';
$message = ( isset( $message ) ) ? "<p class='message'>$message</p>" : "";
$show = $payload->show( $HPCAnalysisRequestID, $filenames ); // debugging info, if enabled
$payload->save();
echo <<<HTML
<!-- Begin page content -->
<div id='content'>
<h1 class="title">$page_title</h1>
<!-- Place page content here -->
$message
<p>$output_msg</p>
<p><a href="queue_setup_1.php">Submit another request</a></p>
$show
</div>
HTML;
include 'footer.php';
exit();
?>