class.tx_nG6_pi1.php 27.5 KB
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<?php
/***************************************************************
*  Copyright notice
*
*  (c) 2009 PF bioinformatique de Toulouse <>
*  All rights reserved
*
*  This script is part of the TYPO3 project. The TYPO3 project is
*  free software; you can redistribute it and/or modify
*  it under the terms of the GNU General Public License as published by
*  the Free Software Foundation; either version 2 of the License, or
*  (at your option) any later version.
*
*  The GNU General Public License can be found at
*  http://www.gnu.org/copyleft/gpl.html.
*
*  This script is distributed in the hope that it will be useful,
*  but WITHOUT ANY WARRANTY; without even the implied warranty of
*  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
*  GNU General Public License for more details.
*
*  This copyright notice MUST APPEAR in all copies of the script!
***************************************************************/
/**
 * Plugin 'nG6' for the 'nG6' extension.
 *
 * @author	PF bioinformatique de Toulouse <>
 */


require_once(PATH_tslib.'class.tslib_pibase.php');

class tx_nG6_pi1 extends tslib_pibase {
	var $prefixId = 'tx_nG6_pi1';		// Same as class name
	var $scriptRelPath = 'pi1/class.tx_nG6_pi1.php';	// Path to this script relative to the extension dir.
	var $extKey = 'nG6';	// The extension key.
	//var $pi_checkCHash = TRUE;
	
	/**
	 * Main method of your PlugIn
	 *
	 * @param	string		$content: The content of the PlugIn
	 * @param	array		$conf: The PlugIn Configuration
	 * @return	The content that should be displayed on the website
	 */
	function main($content,$conf)	{
		if (strstr($this->cObj->currentRecord,'tt_content'))	{
			$conf['pidList'] = $this->cObj->data['pages'];
			$conf['recursive'] = $this->cObj->data['recursive'];
		}
		$this->internal['results_at_a_time'] = $conf["results_at_a_time"];
		$this->pi_loadLL();
		
		if ($this->userIsAuthorized()) {
			switch((string)$conf['view'])	{
				case 'project':
					if ($this->piVars['analyze_id']) {
						return $this->pi_wrapInBaseClass($this->pi_analyze_single_view($content,$conf));
					} elseif ($this->piVars['project_id'] && $this->piVars['run_id']) {
						return $this->pi_wrapInBaseClass($this->pi_run_view($content,$conf));
					} else {
						return $this->pi_wrapInBaseClass($this->pi_project_view($content,$conf));
					}
					break;
				case 'run':
					if ($this->piVars['analyze_id']) {
						return $this->pi_wrapInBaseClass($this->pi_analyze_single_view($content,$conf));
					} else {
						return $this->pi_wrapInBaseClass($this->pi_run_view($content,$conf));
					}
				break;
				case 'analyze':
					return $this->pi_wrapInBaseClass($this->pi_analyze_view($content,$conf));
				break;
				default:
					return $this->pi_wrapInBaseClass($this->pi_project_view($content,$conf));
				break;
			}
		} else {
			return $this->pi_wrapInBaseClass($this->getFieldHeader('not_authorized'));
		}
	}
		
	/**
	 * Shows a list of database entries
	 *
	 * @param	string		$content: content of the PlugIn
	 * @param	array		$conf: PlugIn Configuration
	 * @return	HTML list of table entries
	 */
	function pi_project_view($content,$conf)	{
		$this->conf=$conf;		// Setting the TypoScript passed to this function in $this->conf
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();		// Loading the LOCAL_LANG values
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!
	
		if ($this->piVars['project_id'])	{	// If a single element should be displayed:
			$this->internal['currentTable'] = 'tx_nG6_project';
			$this->internal['currentRow'] = $this->pi_getRecord('tx_nG6_project',$this->piVars['project_id']);
			return $this->pi_project_single_view($content,$conf);
		} else {
			if (!$GLOBALS['TSFE']->loginUser) { // If the user is not logged on
					// Make listing query, pass query to SQL database:
				$res = $this->pi_exec_query('tx_nG6_project',0,'AND fe_group=0');
				$this->internal['currentTable'] = 'tx_nG6_project';
				$resc = $this->pi_exec_query('tx_nG6_project',1,'AND fe_group=0');
				list($this->internal['res_count']) = $GLOBALS['TYPO3_DB']->sql_fetch_row($resc);
			} else {	
					// Make listing query, pass query to SQL database:
				$res = $this->pi_exec_query('tx_nG6_project',0,'AND fe_group IN('.$this->getCurrentUserGroups().')');
				$this->internal['currentTable'] = 'tx_nG6_project';
				$resc = $this->pi_exec_query('tx_nG6_project',1,'AND fe_group IN('.$this->getCurrentUserGroups().')');
				list($this->internal['res_count']) = $GLOBALS['TYPO3_DB']->sql_fetch_row($resc);			
			}
			if ($this->internal['res_count'] > 0) {
				return $this->pi_project_list_view($res);
			} else {
				return $this->getFieldHeader('no_raw');
			}	
		}
	}

	/**
	 * Creates a list from a database query
	 *
	 * @param	ressource	$res: A database result ressource
	 * @return	A HTML list if result items
	 */
	function pi_project_list_view($res)	{
		$content = '<table'.$this->pi_classParam('listrow').'>
						<tr>
							<th>'.$this->getFieldHeader('project_name').'</th>
							<th>'.$this->getFieldHeader('description').'</th>
						</tr>';
		while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{			
			$content .= '<tr>
				<td>'.$this->getFieldContent('name', array('project_id'=>$this->internal['currentRow']['uid'])).'</td>
				<td>'.$this->getFieldContent('description').'</td>
				</tr>';
		}
		return $content .= '</table>';
	}

	/**
	 * Display a single item from the database
	 *
	 * @param	string		$content: The PlugIn content
	 * @param	array		$conf: The PlugIn configuration
	 * @return	HTML of a single database entry
	 */
	function pi_project_single_view($content, $conf)	{
		$this->conf=$conf;
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!

			// This sets the title of the page for use in indexed search results:
		if ($this->internal['currentRow']['title'])	$GLOBALS['TSFE']->indexedDocTitle=$this->internal['currentRow']['title'];
	    
		$content = '<div'.$this->pi_classParam('singleView').'>
			         <h2>Projet '.$this->internal['currentRow']['name'].' :</h2>
				     <p><strong>'.$this->getFieldContent('description').'</strong></p>
		             </div>'.$this->pi_getEditPanel().$this->pi_run_view($content, $conf, $this->internal['currentRow']['uid']);
		$content .= $this->pi_analyze_view($content, $conf, 'project');
		return $content;
	}
	
	/**
	 * Shows a list of database entries
	 *
	 * @param	string		$content: content of the PlugIn
	 * @param	array		$conf: PlugIn Configuration
	 * @return	HTML list of table entries
	 */
	function pi_run_view($content, $conf) {
		$this->conf=$conf;		// Setting the TypoScript passed to this function in $this->conf
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();		// Loading the LOCAL_LANG values
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!
		$lConf = $this->conf['listView.'];	// Local settings for the listView function
		if ($this->piVars['run_id'])	{	// If a single element should be displayed:
			$this->internal['currentTable'] = 'tx_nG6_run';
			$this->internal['currentRow'] = $this->pi_getRecord('tx_nG6_run',$this->piVars['run_id']);
			$content = $this->pi_run_single_view($content,$conf);
			return $content;
		} else {
			
			if ($this->piVars['project_id']) {
				$where = 'tx_nG6_project_run.project_id = '.$this->piVars['project_id'];
				$this->internal['res_count'] = 1;
			} else {
				if (!$GLOBALS['TSFE']->loginUser) { // If the user is not logged on
					$res = $this->pi_exec_query('tx_nG6_project',0,'AND fe_group=0');
					$this->internal['currentTable'] = 'tx_nG6_project';
					$resc = $this->pi_exec_query('tx_nG6_project',1,'AND fe_group=0');
					list($this->internal['res_count']) = $GLOBALS['TYPO3_DB']->sql_fetch_row($resc);
					$where = 'tx_nG6_project_run.project_id IN (';
					while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
			    		$where .= $this->internal['currentRow']['uid'] . ",";
					}
					$where = substr($where, 0, -1) . ")";
				} else {				
					$res = $this->pi_exec_query('tx_nG6_project',0,'AND fe_group IN ('.$this->getCurrentUserGroups().')');
					$this->internal['currentTable'] = 'tx_nG6_project';
					$resc = $this->pi_exec_query('tx_nG6_project',1,'AND fe_group IN ('.$this->getCurrentUserGroups().')');
					list($this->internal['res_count']) = $GLOBALS['TYPO3_DB']->sql_fetch_row($resc);
					$where = 'tx_nG6_project_run.project_id IN (';
					while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
			    		$where .= $this->internal['currentRow']['uid'] . ",";
					}
					$where = substr($where, 0, -1) . ")";
				}
			}
			
			if ($this->internal['res_count'] > 0) {
				$queryParts = array(
					'SELECT' => 'run_id',
					'FROM' => 'tx_nG6_project_run',
					'WHERE' => $where,
					'GROUPBY' => '',
					'ORDERBY' => '',
					'LIMIT' => ''
				);
				$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
				$where = 'AND tx_nG6_run.uid IN (';
				while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
		    		$where .= $this->internal['currentRow']['run_id'] . ",";
				}
				$where = substr($where, 0, -1) . ")";
				$where .= " ORDER BY date DESC";
				$res = $this->pi_exec_query('tx_nG6_run', 0, $where);
				$this->internal['currentTable'] = 'tx_nG6_run';
	
					// Returns the content from the plugin.
				return $this->pi_run_list_view($res);
			} else {
				return $this->getFieldHeader('no_raw');
			}
		}
	}
	
	/**
	 * Creates a list from a database query
	 *
	 * @param	ressource	$res: A database result ressource
	 * @return	A HTML list if result items
	 */
	function pi_run_list_view($res)	{
		
		if ($this->piVars['project_id']) {
			$content = '<br /> <h3> '.$this->getFieldHeader('runs_done').'</h3> <br />';
		}
		$content .= '<table'.$this->pi_classParam('listrow').'>
						<tr>
							<th>'.$this->getFieldHeader('run_name').'</td>
							<th>'.$this->getFieldHeader('project_name').'</td>
							<th>'.$this->getFieldHeader('date').'</td>
							<th>'.$this->getFieldHeader('species').'</td>
							<th>'.$this->getFieldHeader('data_nature').'</td>
							<th>'.$this->getFieldHeader('type').'</td>
							<th>'.$this->getFieldHeader('nb_sequences').'</td>
							<th>'.$this->getFieldHeader('full_seq_size').'</td>
							<th>'.$this->getFieldHeader('description').'</td>
							<th>'.$this->getFieldHeader('sequencer').'</td>
						</tr>';
		while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{

			// First let's get the run's project name
			$queryParts = array(
				'SELECT' => 'project_id',
				'FROM' => 'tx_nG6_project_run',
				'WHERE' => 'run_id='.$this->internal['currentRow']['uid'],
				'GROUPBY' => '',
				'ORDERBY' => '',
				'LIMIT' => ''
			);
			$res1 = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res1);
			$queryParts = array(
				'SELECT' => 'name',
				'FROM' => 'tx_nG6_project',
				'WHERE' => 'uid='.$val['project_id'],
				'GROUPBY' => '',
				'ORDERBY' => '',
				'LIMIT' => ''
			);
			$res2 = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res2);
			$project_name = $val['name'];
			
			$content .= '<tr>
				<td>'.$this->getFieldContent('name', array('run_id'=>$this->internal['currentRow']['uid'], 'project_id'=>$this->piVars['project_id'])).'</td>
				<td>'.$project_name.'</td>
				<td>'.$this->getFieldContent('date').'</td>
				<td>'.$this->getFieldContent('species').'</td>
				<td>'.$this->getFieldContent('data_nature').'</td>
				<td>'.$this->getFieldContent('type').'</td>
				<td>'.$this->getFieldContent('nb_sequences').'</td>
				<td>'.$this->getFieldContent('full_seq_size').'</td>
				<td>'.$this->getFieldContent('description').'</td>
				<td>'.$this->getFieldContent('sequencer').'</td>
				</tr>';
			$i+=1;
		}
		$content .= '</table>';
		return $content;
	}

	/**
	 * Display a single item from the database
	 *
	 * @param	string		$content: The PlugIn content
	 * @param	array		$conf: The PlugIn configuration
	 * @return	HTML of a single database entry
	 */
	function pi_run_single_view($content,$conf)	{
		$this->conf=$conf;
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!
			// This sets the title of the page for use in indexed search results:
		if ($this->internal['currentRow']['title'])	$GLOBALS['TSFE']->indexedDocTitle=$this->internal['currentRow']['title'];

		// First let's get the run's project name
		$queryParts = array(
			'SELECT' => 'project_id',
			'FROM' => 'tx_nG6_project_run',
			'WHERE' => 'run_id='.$this->piVars['run_id'],
			'GROUPBY' => '',
			'ORDERBY' => '',
			'LIMIT' => ''
		);
		$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
		$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res);
		$queryParts = array(
			'SELECT' => 'name',
			'FROM' => 'tx_nG6_project',
			'WHERE' => 'uid='.$val['project_id'],
			'GROUPBY' => '',
			'ORDERBY' => '',
			'LIMIT' => ''
		);
		$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
		$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res);
		$project_name = $val['name'];

		$content = '<div'.$this->pi_classParam('singleView').'><h2>Run '.$this->internal['currentRow']['name'].' :</h2>';
		$content .= '<p><strong>'.$this->getFieldContent('description').'</strong></p> </div>
				<table'.$this->pi_classParam('listrow').'>
					<tr>
						<th align="left">'.$this->getFieldHeader('project_name').' :</th>
						<td align="left">'.$project_name.'</td>
					</tr>	
					<tr>
						<th align="left">'.$this->getFieldHeader('date').' :</th>
						<td align="left">'.$this->getFieldContent('date').'</td>
					</tr>					
					<tr>
						<th align="left">'.$this->getFieldHeader('species').' :</th>
						<td align="left">'.$this->getFieldContent('species').'</td>
					</tr>
					<tr>
						<th align="left">'.$this->getFieldHeader('type').' :</th>
						<td align="left">'.$this->getFieldContent('type').'</td>
					</tr>
					<tr>
						<th align="left">'.$this->getFieldHeader('data_nature').' :</th>
						<td align="left">'.$this->getFieldContent('data_nature').'</td>
					</tr>
					<tr>
						<th align="left">'.$this->getFieldHeader('nb_sequences').' :</th>
						<td align="left">'.$this->getFieldContent('nb_sequences').'</td>
					</tr>
					<tr>
						<th align="left">'.$this->getFieldHeader('full_seq_size').' :</th>
						<td align="left">'.$this->getFieldContent('full_seq_size').'</td>
					</tr>						
					<tr>
						<th align="left">'.$this->getFieldHeader('sequencer').' :</th>
						<td align="left">'.$this->getFieldContent('sequencer').'</td>
					</tr>
					<tr>
						<th align="left">'.$this->getFieldHeader('downloads').' :</th>
						<td align="left">'.$this->get_downloads_list($conf).'</td>
					</tr>
				</table>';
		$content .= $this->pi_analyze_view($content, $conf, 'run');
		return $content.$this->pi_getEditPanel();
	}
	
	/**
	 * Shows a list of database entries
	 *
	 * @param	string		$content: content of the PlugIn
	 * @param	array		$conf: PlugIn Configuration
	 * @param	string		$type: What kind of analyze is it : run or project
	 * 	 * @return	HTML list of table entries
	 */
	function pi_analyze_view($content,$conf, $type)	{
		$this->conf=$conf;		// Setting the TypoScript passed to this function in $this->conf
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();		// Loading the LOCAL_LANG values
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!
	
		if ($this->piVars['analyze_id'])	{	// If a single element should be displayed:
			$this->internal['currentTable'] = 'tx_nG6_analyze';
			$this->internal['currentRow'] = $this->pi_getRecord('tx_nG6_analyze',$this->piVars['analyze_id']);
			return $this->pi_analyze_single_view($content,$conf);
		} else {
	
			if ($type == 'run') {
				// Selects Analyzis done on this run
				$queryParts = array(
					'SELECT' => 'analyze_id',
					'FROM' => 'tx_nG6_run_analyze',
					'WHERE' => 'tx_nG6_run_analyze.run_id = '.$this->piVars['run_id'],
					'GROUPBY' => '',
					'ORDERBY' => '',
					'LIMIT' => ''
				);
			} elseif ($type == 'project') {
				// Selects Analyzis done on this project
				$queryParts = array(
					'SELECT' => 'analyze_id',
					'FROM' => 'tx_nG6_project_analyze',
					'WHERE' => 'tx_nG6_project_analyze.project_id = '.$this->piVars['project_id'],
					'GROUPBY' => '',
					'ORDERBY' => '',
					'LIMIT' => ''
				);
			}			
			$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			
				// Put the whole list together:
			$fullTable='';	// Clear var;
			if ($GLOBALS['TYPO3_DB']->sql_num_rows($res) > 0) {
				
				$where = 'AND tx_nG6_analyze.uid IN (';
				while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
		    		$where .= $this->internal['currentRow']['analyze_id'] . ",";
				}
				$where = substr($where, 0, -1) . ")";
				$where .= 'ORDER BY name';
				$res = $this->pi_exec_query('tx_nG6_analyze', 0, $where);
				$this->internal['currentTable'] = 'tx_ng6_analyze';
		
					// Adds the whole list table
				$fullTable.=$this->pi_analyze_list_view($res);
				
			}
				// Returns the content from the plugin.
			return $fullTable;
		}
	}

	/**
	 * Creates a list from a database query
	 *
	 * @param	ressource	$res: A database result ressource
	 * @return	A HTML list if result items
	 */
	function pi_analyze_list_view($res)	{
		$content.='<br /> <h3> '.$this->getFieldHeader('analyzes_done').'</h3> <br />
				<table'.$this->pi_classParam('listrow').'>
					<tr>
						<th>'.$this->getFieldHeader('name').'</td>
						<th>'.$this->getFieldHeader('description').'</td>
						<th>'.$this->getFieldHeader('software').'</td>
						<th>'.$this->getFieldHeader('version').'</td>
					</tr>';
		while($this->internal['currentRow'] = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
			$content .= '<tr>
				<td>'.$this->getFieldContent('name', array('analyze_id'=>$this->internal['currentRow']['uid'], 'run_id'=>$this->piVars['run_id'], 'project_id'=>$this->piVars['project_id'])).'</td>
				<td>'.$this->getFieldContent('description').'</td>
				<td>'.$this->getFieldContent('software').'</td>
				<td>'.$this->getFieldContent('version').'</td>
				</tr>';
		}
		$content .= '</table>';
		return $content;
	}

	/**
	 * Display a single item from the database
	 *
	 * @param	string		$content: The PlugIn content
	 * @param	array		$conf: The PlugIn configuration
	 * @return	HTML of a single database entry
	 */
	function pi_analyze_single_view($content, $conf) {
				
		$this->conf=$conf;
		$this->pi_setPiVarDefaults();
		$this->pi_loadLL();
		$this->pi_USER_INT_obj=1;	// Configuring so caching is not expected. This value means that no cHash params are ever set. We do this, because it's a USER_INT object!

			// This sets the title of the page for use in indexed search results:
		if ($this->internal['currentRow']['title'])	$GLOBALS['TSFE']->indexedDocTitle=$this->internal['currentRow']['title'];
		$this->internal['currentTable'] = 'tx_nG6_analyze';
		$this->internal['currentRow'] = $this->pi_getRecord('tx_nG6_analyze',$this->piVars['analyze_id']);
		
		$content = '<div'.$this->pi_classParam('singleView').'><h2>Analyse '.$this->internal['currentRow']['name'].' : <span>'.$this->getFieldContent('description').'</span></h2></div>';
		if (file_exists($conf['data'].$this->internal['currentRow']['directory'].'/index.html' ))
                {
			$fp = fopen((string)$conf['data'].$this->internal['currentRow']['directory'].'/index.html',"r"); //lecture du fichier
			while (!feof($fp)) { //on parcourt toutes les lignes
				$content .= fgets($fp, 4096); // lecture du contenu de la ligne
			}
		}
		else
		{
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			$content .= $this->getFieldHeader('not_synchro');
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		}
		return $content;
	}
	
	/**
	 * Returns the content of a given field
	 *
	 * @param	string		$fN: name of table field
	 * @return	Value of the field
	 */
	function getFieldContent($fN, $mergeArr=array())	{
		switch($fN) {
			case 'uid':
				return $this->pi_list_linkSingle($this->internal['currentRow'][$fN],$this->internal['currentRow']['uid'],1, $mergeArr);	// The "1" means that the display of single items is CACHED! Set to zero to disable caching.
			break;
			case 'name':
				return $this->pi_list_linkSingle($this->internal['currentRow'][$fN],$this->internal['currentRow']['uid'],1, $mergeArr);	// The "1" means that the display of single items is CACHED! Set to zero to disable caching.
			break;
			case 'date':
					// %A %e. %B %Y
				return strftime('%d-%m-%y',$this->internal['currentRow']['date']);
			break;			
			default:
				return $this->internal['currentRow'][$fN];
			break;
		}
	}
	/**
	 * Returns the label for a fieldname from local language array
	 *
	 * @param	[type]		$fN: ...
	 * @return	[type]		...
	 */
	function getFieldHeader($fN)	{
		switch($fN) {
			
			default:
				return $this->pi_getLL('listFieldHeader_'.$fN,'['.$fN.']');
			break;
		}
	}
	
	/**
	 * Returns a sorting link for a column header
	 *
	 * @param	string		$fN: Fieldname
	 * @return	The fieldlabel wrapped in link that contains sorting vars
	 */
	function getFieldHeader_sortLink($fN)	{
		return $this->pi_linkTP_keepPIvars($this->getFieldHeader($fN),array('sort'=>$fN.':'.($this->internal['descFlag']?0:1)));
	}
	
	/**
	 * Overloading of the tslib_pibase->pi_list_linkSingle function so piVars[showUid] is not set.
	 * Uses pi_linkTP for the linking
	 *
	 * @param	string		The content string to wrap in <a> tags
	 * @param	integer		UID of the record for which to display details (basically this will become the value of [showUid]
	 * @param	boolean		See pi_linkTP_keepPIvars
	 * @param	array		Array of values to override in the current piVars. Same as $overrulePIvars in pi_linkTP_keepPIvars
	 * @param	boolean		If true, only the URL is returned, not a full link
	 * @param	integer		Alternative page ID for the link. (By default this function links to the SAME page!)
	 * @return	string		The input string wrapped in <a> tags
	 * @see pi_linkTP(), pi_linkTP_keepPIvars()
	 */
	function pi_list_linkSingle($str,$uid,$cache=FALSE,$mergeArr=array(),$urlOnly=FALSE,$altPageId=0)	{
		if ($this->prefixId)	{
			if ($cache)	{
				$overrulePIvars=(array)$mergeArr;
				$str = $this->pi_linkTP($str,Array($this->prefixId=>$overrulePIvars),$cache,$altPageId);
			} else {
				$overrulePIvars=(array)$mergeArr;
				$str = $this->pi_linkTP_keepPIvars($str,$overrulePIvars,$cache,0,$altPageId);
			}

				// If urlOnly flag, return only URL as it has recently be generated.
			if ($urlOnly)	{
				$str = $this->cObj->lastTypoLinkUrl;
			}
		}
		return $str;
	}
	
	/**
	 * Display a list of downloadable file
	 *
	 * @param	array		$conf: The PlugIn configuration
	 * @return	HTML of a list of downlabale links
	 */
	function get_downloads_list($conf) {
		$directory = (string)$conf['data'].$this->internal['currentRow']['directory'];
		try {
			if (!is_dir($directory)) { throw new Exception('Error when attempting to open the data folder !'); }
			$my_directory = opendir($directory) or die('Error when attempting to open the data folder !');
			$download = '<p '.$this->pi_classParam('downloads').'><ul>';
			while($entry = @readdir($my_directory)) {
				if(!is_dir($directory.'/'.$entry)&& $entry != '.' && $entry != '..' && !$this->endsWith($entry, ".cfg")) {
					$link = 'fileadmin/'.$this->internal['currentRow']['directory'].'/'.$entry;
					$download .= '<li><a href="'.$link.'" target="_blank">'.$entry.'</a></li>';
				}
			}
			$download .= '</ul>';		
			closedir($my_directory);
			return $download;
		}
		catch (Exception $e) {
			return $this->getFieldHeader('not_synchro');
		}
	}
	
	// return true if $str ends with $sub
	function endsWith( $str, $sub ) {
		return ( substr( $str, strlen( $str ) - strlen( $sub ) ) == $sub );
	}
	
	function getCurrentUserGroups() {
		$tab_groups = array();
		$this->getSubGroups($GLOBALS['TSFE']->fe_user->user['usergroup'], '', $tab_groups);
		$groups = '';
		foreach($tab_groups as $valeur) { $groups .= $valeur.','; }
		return substr($groups, 0, -1);	
	}

	/**
	 * Fetches subgroups of groups. Function is called recursively for each subgroup.
	 * Function was previously copied from t3lib_userAuthGroup->fetchGroups and has been slightly modified.
	 *
	 * @param	string		Commalist of fe_groups uid numbers
	 * @param	string		List of already processed fe_groups-uids so the function will not fall into a eternal recursion.
	 * @return	array
	 * @access private
	 */
	function getSubGroups($grList, $idList='', &$groups)	{

			// Fetching records of the groups in $grList (which are not blocked by lockedToDomain either):
		$lockToDomain_SQL = ' AND (lockToDomain=\'\' OR lockToDomain IS NULL OR lockToDomain=\''.$this->authInfo['HTTP_HOST'].'\')';
		if (!$this->authInfo['showHiddenRecords'])	$hiddenP = 'AND hidden=0 ';
		$res = $GLOBALS['TYPO3_DB']->exec_SELECTquery('uid,subgroup', 'fe_groups', 'deleted=0 '.$hiddenP.' AND uid IN ('.$grList.')'.$lockToDomain_SQL);

		$groupRows = array();	// Internal group record storage

			// The groups array is filled
		while ($row = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res))	{
			if(!in_array($row['uid'], $groups))	{ $groups[] = $row['uid']; }
			$groupRows[$row['uid']] = $row;
		}

			// Traversing records in the correct order
		$include_staticArr = t3lib_div::intExplode(',', $grList);
		foreach($include_staticArr as $uid)	{	// traversing list

				// Get row:
			$row=$groupRows[$uid];
			if (is_array($row) && !t3lib_div::inList($idList,$uid))	{	// Must be an array and $uid should not be in the idList, because then it is somewhere previously in the grouplist

					// Include sub groups
				if (trim($row['subgroup']))	{
					$theList = implode(',',t3lib_div::intExplode(',',$row['subgroup']));	// Make integer list
					$this->getSubGroups($theList, $idList.','.$uid, $groups);		// Call recursively, pass along list of already processed groups so they are not recursed again.
				}
			}
		}
	}
	
	
	function userIsAuthorized () {
		if ($this->piVars['project_id']) {
			$queryParts = array(
				'SELECT' => 'fe_group',
				'FROM' => 'tx_nG6_project',
				'WHERE' => 'uid='.$this->piVars['project_id'],
				'GROUPBY' => '',
				'ORDERBY' => '',
				'LIMIT' => ''
			);
			$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res);
			$authorized_group = $val['fe_group'];
		} elseif ($this->piVars['run_id']) {
			$queryParts = array(
				'SELECT' => 'project_id',
				'FROM' => 'tx_nG6_project_run',
				'WHERE' => 'run_id='.$this->piVars['run_id'],
				'GROUPBY' => '',
				'ORDERBY' => '',
				'LIMIT' => ''
			);
			$res1 = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res1);
			$queryParts = array(
				'SELECT' => 'fe_group',
				'FROM' => 'tx_nG6_project',
				'WHERE' => 'uid='.$val['project_id'],
				'GROUPBY' => '',
				'ORDERBY' => '',
				'LIMIT' => ''
			);
			$res2 = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
			$val = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res2);
			$authorized_group = $val['fe_group'];
		} else {
			return true;
		}
		if (!$GLOBALS['TSFE']->loginUser) { // If the user is not logged on
			return $authorized_group == 0;
		} else {
			return in_array($authorized_group, split(",", $this->getCurrentUserGroups()));
		}
	}
		
}



if (defined('TYPO3_MODE') && $TYPO3_CONF_VARS[TYPO3_MODE]['XCLASS']['ext/nG6/pi1/class.tx_nG6_pi1.php'])	{
	include_once($TYPO3_CONF_VARS[TYPO3_MODE]['XCLASS']['ext/nG6/pi1/class.tx_nG6_pi1.php']);
}

?>