Replace static link to javascript with a dynamic one

When creating a new user, there is no data set
for the users_settings table.
This results in a JavaScript error that prevents the site
from working correctly.

application/config/autoload.php

@@ -64,7 +64,7 @@ $autoload['libraries'] = array('session', 'lang_detect', 'database', 'access', '
 |	$autoload['helper'] = array('url', 'file');
 */
 
-$autoload['helper'] = array('date', 'url', 'form', 'language', 'string', 'asset', 'text');
+$autoload['helper'] = array('date', 'url', 'form', 'language', 'string', 'asset', 'text', 'html');
 
 
 /*

application/libraries/Access.php

@@ -204,7 +204,6 @@ class Access {
 		$this->CI->session->sess_destroy();
 		$this->CI->session->sess_create();
 
-		$this->CI->messages->add(_('Logged out successfully'), 'success');
 		return true;
 	}
 

application/libraries/MY_Session.php

@@ -64,9 +64,11 @@ class MY_Session extends CI_Session {
 
 		// before continuing, we need to determine if there is any custom data to deal with.
 		foreach (array('session_id', 'user_id', 'ip_address', 'user_agent', 'last_activity') as $val) {
+			if(isset($customUserdata[$val])) {
 				unset($customUserdata[$val]);
 				$cookieUserdata[$val] = $this->userdata[$val];
 			}
+		}
 
 		// did we find any custom data? If not, we turn the empty array into a string
 		if (count($customUserdata) === 0) {
@@ -76,6 +78,10 @@ class MY_Session extends CI_Session {
 			$customUserdata = $this->_serialize($customUserdata);
 		}
 
+		if(!isset($this->userdata['user_id'])) {
+			$this->userdata['user_id'] = '';
+		}
+
 		// run the update query
 		$this->CI->db->where('session_id', $this->userdata['session_id']);
 		$this->CI->db->update($this->sess_table_name, array('last_activity' => $this->userdata['last_activity'], 'user_id' => $this->userdata['user_id'], 'user_data' => $customUserdata));

application/libraries/programs/Scatt.php

@@ -30,8 +30,9 @@
 class Scatt extends Program_runner {
 
 	/**
+	 * Constructor.
 	 *
-	 * @param unknown_type $params
+	 * @param mixed $params
 	 */
 	public function __construct($params) {
 		$this->CI =& get_instance();
@@ -44,35 +45,54 @@ class Scatt extends Program_runner {
 	}
 
 	/**
+	 * Mapping function to generate correct float values
+	 */
+	private function formatNumbers($data) {
+		if($data['type'] == 'float')
+			$data['value'] = sprintf('%.6f', $data['value']);
+
+		return $data;
+	}
+
+	/**
+	 * Generate dafault.calc and param_dsm.dat files.
 	 *
-	 * @param unknown_type $experimentId
+	 * @param string $experimentId
 	 */
 	public function _createJob($experimentId) {
 		$this->CI->load->library('parser');
 
 		$experiment = $this->CI->experiment->getById($experimentId);
 
+		// create default.calc
 		$path = FCPATH . 'uploads/' . $experiment['project_id'] . '/' . $experiment['id'] . '/';
 		$handler = fopen($path . 'default.calc', "w");
 
+		// if we didn't specify a model for this experiment, copy the default 
+		// from the project.
 		if (!file_exists($path . 'default.obj')) {
 			@copy(FCPATH . 'uploads/' . $experiment['project_id'] . '/defaultmodel.obj', $path . 'default.obj');
 		}
 
-		$data['parameters'] = $this->CI->experiment->getParameters($experimentId);
+		// get the parameters for this experiment and convert the simple float values to %.6f
+		$data['parameters'] = array_map(array($this, 'formatNumbers'), $this->CI->experiment->getParameters($experimentId));
 
 		@fwrite($handler, $this->CI->parser->parse_string($this->program['config_template'], $data, true));
 		@fclose($handler);
 
+		// all param_dsm.dat files have the same header:
 		$dsm_dat  = "&param_scat\n";
 		$dsm_dat .= "filein_name='./default.obj',\n";
 		$dsm_dat .= "tmat_file_name='./default.tma',\n";
 		$dsm_dat .= "scat_diag_file_name='./default.out',\n";
 
+		// sscatt requires a specific number format, so we need to convert the 
+		// values
 		foreach ($data['parameters'] as $par) {
 			if ($par['type'] == 'float') {
 				$par['value'] = number_format((double) $par['value'], 6, '.', '').'d0';
 			}
+
 			if ($par['name'] == 'refractive_idx_im') {
 				$refractive_idx_im = $par['value'];
 			} else if ($par['name'] == 'refractive_idx_re') {
@@ -82,6 +102,7 @@ class Scatt extends Program_runner {
 			}
 		}
 
+		// add a field that contains a combination of the refractive indices
 		$dsm_dat .= "ind_ref=({$refractive_idx_re},{$refractive_idx_im})\n";
 		$dsm_dat .= "/\n";
 
@@ -91,6 +112,7 @@ class Scatt extends Program_runner {
 	}
 
 	/**
+	 * Parse results from an .out file.
 	 *
 	 * @param string $experimentId
 	 */
@@ -101,14 +123,17 @@ class Scatt extends Program_runner {
 
 		$path = FCPATH . 'uploads/' . $experiment['project_id'] . '/' . $experiment['id'] . '/';
 
+		// there was no results file found. return an empty array
 		if (!file_exists($path . 'default.out')) {
 			return array();
 		}
 
+		// open the results file
 		$handler = fopen($path . 'default.out', "r");
 
 		$results = array();
 
+		// and parse its contents
 		while (($line = fgets($handler)) !== false) {
 			$values = array();
 			$i = 0;

application/models/user.php

@@ -296,7 +296,18 @@ class User extends CI_Model {
 
 		$this->db->insert('users', array_merge($data, $additionalData));
 
-		return $this->db->affected_rows() > 0 ? $data['id'] : false;
+		$user_created = $this->db->affected_rows() == 1;
+
+		if($user_created) {
+			// set the initial user settings
+			$settings['user_id'] = $data['id'];
+			$settings['jobs_check_interval'] = 5;
+
+			$this->db->insert('users_settings', $settings);
+			return substr($data['id'], 0, 16);
+		}
+
+		return false;
 	}
 
 	/**

application/views/auth/login.php

@@ -16,6 +16,7 @@
 <script type="text/javascript">
 if (typeof jQuery == 'undefined') document.write(unescape("%3Cscript src='<?=base_url('/assets/js/jquery-1.6.2.min.js');?>' type='text/javascript'%3E%3C/script%3E"));
 </script>
+<?=js_asset('jquery.tablednd.js');?>
 <?=js_asset('minmax.js');?>
 <?=js_asset('scattport.js');?>
 

application/views/footer.php

@@ -9,9 +9,9 @@
 	</div>
 
 	<div id="copyright">
-		<?=image_asset('iwt.png');?>
+		<a href="http://www.dfg.de/en/index.jsp" target="_blank"><?=img(array('src' => 'assets/images/dfg.png', 'title' => 'Deutsche Forschungsgemeinschaft'))?></a>
-		<?=image_asset('dfg.png');?>
+		<a href="http://www.hs-emden-leer.de/en/startseite.html" target="_blank"><?=img(array('src' => 'assets/images/hsemden.png', 'title' => 'University of Applied Sciences Emden'))?></a>
-		<?=image_asset('uni.png');?>
+		<a href="http://www.uni-bremen.de/en.html" target="_blank"><?=img(array('src' => 'assets/images/unibremen.png', 'title' => 'University of Bremen'))?></a>
 	</div>
 
 </div>

assets/js/scattport.js

@@ -133,6 +133,12 @@ $(document).ready(function() {
 	/*
 	 * Notification stuff
 	 */
+
+	// set a default JOBS_CHECK_INTERVAL
+	if(typeof(window.JOBS_CHECK_INTERVAL) == "undefined") {
+		JOBS_CHECK_INTERVAL = 5;
+	}
+
 	$('#notifications').hide();
 	getNotifications();
 	setInterval('getNotifications()', '5000');