<?php
/*
* get_public_key
* Created on: May 7, 2013 12:20:57 PM
*
* Copyright 2013 EnginSoft S.p.A.
* All rights reserved
*/
include_once 'neurocloud/lib/common.php';
$user = $_GET['user'];
$keyfile = get_private_key_file($user);
if (is_file($keyfile)) {
$output = exec("ssh-keygen -y -f {$keyfile}");
header("Content-Type: text/plain");
echo $output . " {$user}";
} else {
header("Content-Type: text/plain");
echo "No private key found: {$keyfile}";
}
exit;
public static function afterDeleteUser($info)
{
$user = $info['uid'];
$keyfile = get_private_key_file($user);
$publickeyfile = get_public_key_file($user);
exec("rm -f {$keyfile} {$publickeyfile}");
exec("sudo umount " . OC_Config::getValue("datadirectory") . "/{$user}");
}
if (isset($_GET["jobid"])) {
$rerun = true;
$job_id = $_GET["jobid"];
}
$space = get_used_space_remote();
if (is_array($space) && (int) $space['percent'] > (int) $NC_CONFIG['minimum_exec_space']) {
# Redirect to neurocloud app index , showing an error message
$link = OC_Helper::linkTo("neurocloud", "index.php", array("error" => "Cannot execute script, low free space in remote server.<br>Contact administration or delete old jobs"));
header("Location: " . $link);
exit;
}
if (OC_Neurocloud::is_study_runnable($study)) {
if (isset($_GET["mode"]) && $_GET["mode"] == "remote") {
// execute the script in the remote server via a SSH command
// obtain the key file for the current user
$key = get_private_key_file(OC_User::getUser());
// if the file does not exist, the user cannot launch a job
if (!is_file($key)) {
OC_Log::write("neurocloud", "Private key file {$key} not found", OC_Log::ERROR);
$pid = false;
} else {
if (!$rerun) {
$job_id = create_execution_env($study, $script);
}
$exec_dir = get_job_exec_dir_remote($job_id);
$pid = execute_script_remote($study, $job_id, $exec_dir, $rerun, "pipeline" . DIRECTORY_SEPARATOR . $script);
}
} else {
/* execute script locally in the owncloud machine */
if (!$rerun) {
$job_id = create_execution_env($study, $script);
/**
*
* @param type $qsub_jobname
* @return array an array containing 2 values: the first is the number of queued jobs, the second is the number of running jobs
*/
function get_queue_info($qsub_jobname)
{
include "neurocloud/config.inc.php";
$output = "";
$return_var = 0;
$user = OC_User::getUser();
$host = $NC_CONFIG["remote_host"];
$key = get_private_key_file($user);
$return_string = array(0, 0);
// the process is not running, but there could be still pending SGE jobs in the cluster
// so, we will check with qstat if there are still jobs
$cmdline_qstat = create_ssh_command() . "qstat -u {$user} -xml 2>/dev/null ";
exec($cmdline_qstat, $output, $return_var);
if ($return_var == 0) {
$xml_output = join("", $output);
// parse the XML given in output
$xml = new SimpleXMLElement($xml_output);
/* the returned XML has this structure:
<job_info><queue_info>[<job_list>*]<job_info>[<job_list>*]
*
* each job_list contains the data for a single SGE job (name, queue, state, etc)
*/
if ($xml->queue_info->job_list->count() == 0 && $xml->job_info->job_list->count() == 0) {
#$return_string = "No running SGE jobs in queue for job_id " . $qsub_jobname;
return $return_string;
} else {
#$return_string = "Running SGE jobs:\n";
foreach ($xml->queue_info->job_list as $job) {
// check if the SGE job name contains the generated job id for this neurocloud job
if (strpos($job->JB_name, $qsub_jobname)) {
#$return_string = $return_string . $job->JB_name . "\n";
$return_string[1] = $return_string[1] + 1;
}
}
#$return_string = $return_string . "\nQueued SGE jobs:\n";
foreach ($xml->job_info->job_list as $job) {
// check if the SGE job name contains the generated job id for this neurocloud job
if (strpos($job->JB_name, $qsub_jobname)) {
#$return_string = $return_string . $job->JB_name . "\n";
$return_string[0] = $return_string[0] + 1;
}
}
}
return $return_string;
} else {
//return "No SGE jobs in queue for job_id " . $qsub_jobname;
return array(0, 0);
}
}
