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menu.inc.php
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menu.inc.php
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<?php
$currentSection = '';
switch(pathinfo($_SERVER['PHP_SELF'])['filename']){
case 'index':
if(dirname($_SERVER['PHP_SELF']) == '/home'){
$currentSection = 'hp';
}elseif(dirname($_SERVER['PHP_SELF']) == '/helpdesk') {
$currentSection = 'hd';
}elseif(dirname($_SERVER['PHP_SELF']) == '/cookies') {
$currentSection = '';
}elseif(dirname($_SERVER['PHP_SELF']) == '/launch') {
$currentSection = 'lt';
}else{
$currentSection = 'uw';
}
break;
case 'input':
case 'output': $currentSection = 'lt';
break;
case 'newProject': $currentSection = 'uw';
break;
case 'editFile':$currentSection = 'dt';
break;
case 'uploadForm':
case 'uploadForm2': $currentSection = 'dt';
$currentSubSection = 'lc';
break;
case 'general': $currentSection = 'he';
$currentSubSection = 'h1';
break;
case 'starting':$currentSection = 'he';
$currentSubSection = 'h2';
break;
case 'upload': $currentSection = 'he';
$currentSubSection = 'h3';
break;
case 'ws':$currentSection = 'he';
$currentSubSection = 'h4';
break;
case 'launch':$currentSection = 'he';
$currentSubSection = 'h5';
break;
case 'tools':$currentSection = 'he';
$currentSubSection = 'h6';
break;
case 'visualizers':$currentSection = 'he';
$currentSubSection = 'h11';
break;
case 'hdesk':$currentSection = 'he';
$currentSubSection = 'h7';
break;
case 'related':$currentSection = 'he';
$currentSubSection = 'h8';
break;
case 'refs':$currentSection = 'he';
$currentSubSection = 'h9';
break;
case 'ackn':$currentSection = 'he';
$currentSubSection = 'h10';
break;
case 'repositoryList':
case 'experiment': $currentSection = 'dt';
$currentSubSection = 'rp';
$currentSubSubSection = 'ae';
break;
case 'bignasimList':
$currentSection = 'dt';
$currentSubSection = 'rp';
$currentSubSubSection = 'bs';
break;
case 'dataFromTxt': $currentSection = 'dt';
$currentSubSection = 'tx';
break;
case 'dataFromID': $currentSection = 'dt';
$currentSubSection = 'id';
break;
case 'sampleDataList': $currentSection = 'dt';
$currentSubSection = 'sd';
break;
case 'data_senescence': $currentSection = 'dr';
$currentSubSection = 'se';
break;
case 'usrProfile': $currentSection = 'up';
$currentSubSection = 'mp';
break;
case 'dashboard': $currentSection = 'ad';
$currentSubSection = 'ds';
break;
case 'adminUsers': $currentSection = 'ad';
$currentSubSection = 'au';
break;
case 'adminTools': $currentSection = 'ad';
$currentSubSection = 'at';
$currentSubSubSection = 'mt';
break;
case 'logs': $currentSection = 'ad';
$currentSubSection = 'at';
$currentSubSubSection = 'lg';
break;
case 'adminJobs': $currentSection = 'ad';
$currentSubSection = 'aj';
break;
case 'jsonTestValidator':
case 'jsonSpecValidator':
case 'myNewTools':
case 'vmURL':
case 'newTool':
case 'createTest': $currentSection = 'ad';
$currentSubSection = 'at';
$currentSubSubSection = 'td';
break;
case 'help': $currentSection = 'he';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
if($a[1] == "tools") $currentSubSection = 'h6';
else $currentSubSection = 'h11';
$currentSubSubSection = $a[sizeof($a) - 2];
break;
case 'method': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'met';
break;
case 'inputs': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'inp';
break;
case 'outputs': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'out';
break;
case 'results': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'res';
break;
case 'tutorials': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'tut';
break;
case 'references': $currentSection = 'he';
$currentSubSection = 'h6';
$a = explode("/", dirname($_SERVER['PHP_SELF']));
$currentSubSubSection = $a[sizeof($a) - 2];
$currentSubSubSubSection = 'ref';
break;
}
$tools = getTools_List();
sort($tools);
$visualizers = getVisualizers_List();
sort($visualizers);
?>
<!-- BEGIN HEADER & CONTENT DIVIDER -->
<div class="clearfix"> </div>
<!-- END HEADER & CONTENT DIVIDER -->
<!-- BEGIN CONTAINER -->
<div class="page-container">
<!-- BEGIN SIDEBAR -->
<div class="page-sidebar-wrapper">
<!-- BEGIN SIDEBAR -->
<!-- DOC: Set data-auto-scroll="false" to disable the sidebar from auto scrolling/focusing -->
<!-- DOC: Change data-auto-speed="200" to adjust the sub menu slide up/down speed -->
<div class="page-sidebar navbar-collapse collapse">
<!-- BEGIN SIDEBAR MENU -->
<!-- DOC: Apply "page-sidebar-menu-light" class right after "page-sidebar-menu" to enable light sidebar menu style(without borders) -->
<!-- DOC: Apply "page-sidebar-menu-hover-submenu" class right after "page-sidebar-menu" to enable hoverable(hover vs accordion) sub menu mode -->
<!-- DOC: Apply "page-sidebar-menu-closed" class right after "page-sidebar-menu" to collapse("page-sidebar-closed" class must be applied to the body element) the sidebar sub menu mode -->
<!-- DOC: Set data-auto-scroll="false" to disable the sidebar from auto scrolling/focusing -->
<!-- DOC: Set data-keep-expand="true" to keep the submenues expanded -->
<!-- DOC: Set data-auto-speed="200" to adjust the sub menu slide up/down speed -->
<ul class="page-sidebar-menu page-header-fixed " data-keep-expanded="false" data-auto-scroll="true" data-slide-speed="200" style="padding-top: 20px">
<!-- DOC: To remove the sidebar toggler from the sidebar you just need to completely remove the below "sidebar-toggler-wrapper" LI element -->
<!-- BEGIN SIDEBAR TOGGLER BUTTON -->
<li class="sidebar-toggler-wrapper hide">
<div class="sidebar-toggler">
<span></span>
</div>
</li>
<!-- END SIDEBAR TOGGLER BUTTON -->
<li class="nav-item <?php if($currentSection == 'hp') { ?>active open<?php } ?>">
<a href="home/" class="nav-link nav-toggle">
<i class="icon-home"></i>
<span class="title">Homepage</span>
</a>
</li>
<li class="nav-item <?php if($currentSection == 'uw') { ?>active open<?php } ?>">
<a href="workspace/" class="nav-link nav-toggle">
<i class="icon-screen-desktop"></i>
<span class="title">User Workspace</span>
<!--<?php if($currentSection == 'uw') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'uw') { ?>open<?php } ?>"></span>-->
</a>
</li>
<li class="nav-item <?php if($currentSection == 'dt') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<i class="icon-cloud-upload"></i>
<span class="title">Get Data</span>
<?php if($currentSection == 'dt') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'dt') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSection == 'lc') { ?>active open<?php } ?>">
<a href="getdata/uploadForm.php" class="nav-link ">
<span class="title">Upload Files</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'rp') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle ">
<span class="title">From Repository</span>
<span class="arrow"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSubSection == 'ae') { ?>active open<?php } ?>">
<a href="repository/repositoryList.php" class="nav-link">
<span class="title"> Array Express </span>
</a>
</li>
<li class="nav-item <?php if($currentSubSubSection == 'bs') { ?>active open<?php } ?>">
<a href="repository/bignasimList.php" class="nav-link">
<span class="title"> BIGNASim </span>
</a>
</li>
</ul>
</li>
<li class="nav-item <?php if($currentSubSection == 'sd') { ?>active open<?php } ?>">
<a href="getdata/sampleDataList.php" class="nav-link ">
<span class="title">Import example dataset</span>
</a>
</li>
<!--</li>
<li class="nav-item <?php if($currentSubSection == 'id') { ?>active open<?php } ?>">
<a href="getdata/dataFromID.php" class="nav-link ">
<span class="title">From ID</span>
</a>
</li> -->
<!--<li class="nav-item <?php if($currentSubSection == 'tx') { ?>active open<?php } ?>">
<a href="getdata/dataFromTxt.php" class="nav-link ">
<span class="title">From Text</span>
</a>
</li>-->
</ul>
</li>
<li class="nav-item <?php if($currentSection == 'dr') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<i class="icon-layers"></i>
<span class="title">Data Repositories</span>
<?php if($currentSection == 'dt') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'dr') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSection == 'se') { ?>active open<?php } ?>">
<a href="data_repositories/data_senescence.php" class="nav-link ">
<span class="title">Senescence Data</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'bn') { ?>active open<?php } ?>">
<a href="https://www.multiscalegenomics.eu/MuGVRE/modules/BigNASimMuG/browse.php" target="_blank" class="nav-link ">
<span class="title">BigNASim Data</span>
</a>
</li>
</ul>
</li>
<li class="nav-item <?php if($currentSection == 'lt') { ?>active open<?php } ?>">
<a href="launch/" class="nav-link nav-toggle">
<i class="icon-rocket"></i>
<span class="title">Run Tool / Visualizer</span>
</a>
</li>
<li class="nav-item <?php if($currentSection == 'he') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<i class="icon-question"></i>
<span class="title">Help</span>
<?php if($currentSection == 'he') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'he') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSection == 'h1') { ?>active open<?php } ?>">
<a href="help/general.php" class="nav-link ">
<span class="title">General information</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h2') { ?>active open<?php } ?>">
<a href="help/starting.php" class="nav-link ">
<span class="title">Getting Started</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h3') { ?>active open<?php } ?>">
<a href="help/upload.php" class="nav-link ">
<span class="title">Get Data</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h4') { ?>active open<?php } ?>">
<a href="help/ws.php" class="nav-link ">
<span class="title">Workspace</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h5') { ?>active open<?php } ?>">
<a href="help/launch.php" class="nav-link ">
<span class="title">Launch Job</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h6') { ?>active open<?php } ?>">
<a href="help/tools.php" class="nav-link">
<span class="title">Tools</span>
<span class="arrow <?php if($currentSubSection == 'h6') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<?php foreach($tools as $t) {
$s = $GLOBALS['helpsCol']->find(array('tool' => $t["_id"]));
$sections = iterator_to_array($s);
$arrSect = array();
foreach($sections as $sec) {
$arrSect[] = $sec['help'];
}
?>
<li class="nav-item <?php if($currentSubSubSection == $t["_id"]) { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/help.php" class="nav-link">
<span class="title"> <?php echo $t["name"]; ?> </span>
<span class="arrow <?php if($currentSubSubSection == $t["_id"]) { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<?php if(in_array("method", $arrSect)) { ?>
<li class="nav-item <?php if($currentSubSubSubSection == 'met') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/method.php" class="nav-link">
<span class="title"> Method </span>
</a>
</li>
<?php } ?>
<?php if(in_array("inputs", $arrSect)) { ?>
<li class="nav-item <?php if($currentSubSubSubSection == 'inp') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/inputs.php" class="nav-link">
<span class="title"> Inputs </span>
</a>
</li>
<?php } ?>
<?php if(in_array("outputs", $arrSect)) { ?>
<li class="nav-item <?php if($currentSubSubSubSection == 'out') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/outputs.php" class="nav-link">
<span class="title"> Outputs </span>
</a>
</li>
<?php } ?>
<?php if(in_array("results", $arrSect)) { ?>
<li class="nav-item <?php if($currentSubSubSubSection == 'res') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/results.php" class="nav-link">
<span class="title"> Results </span>
</a>
</li>
<?php } ?>
<!--<li class="nav-item <?php if($currentSubSubSubSection == 'tut') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/tutorials.php" class="nav-link">
<span class="title"> Tutorials </span>
</a>
</li>-->
<?php if(in_array("references", $arrSect)) { ?>
<li class="nav-item <?php if($currentSubSubSubSection == 'ref') { ?>active open<?php } ?>">
<a href="tools/<?php echo $t["_id"]; ?>/help/references.php" class="nav-link">
<span class="title"> References </span>
</a>
</li>
<?php } ?>
</ul>
</li>
<?php } ?>
</ul>
</li>
<li class="nav-item <?php if($currentSubSection == 'h11') { ?>active open<?php } ?>">
<a href="help/visualizers.php" class="nav-link">
<span class="title">Visualizers</span>
<span class="arrow <?php if($currentSubSection == 'h11') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<?php foreach($visualizers as $t) {
$s = $GLOBALS['helpsCol']->find(array('tool' => $t["_id"]));
$sections = iterator_to_array($s);
$arrSect = array();
foreach($sections as $sec) {
$arrSect[] = $sec['help'];
}
?>
<li class="nav-item <?php if($currentSubSubSection == $t["_id"]) { ?>active open<?php } ?>">
<a href="visualizers/<?php echo $t["_id"]; ?>/help/help.php" class="nav-link">
<span class="title"> <?php echo $t["name"]; ?> </span>
</a>
</li>
<?php } ?>
</ul>
</li>
<?php if(allowedRoles($_SESSION['User']['Type'], $GLOBALS['NO_GUEST'])){ ?>
<li class="nav-item <?php if($currentSubSection == 'h7') { ?>active open<?php } ?>">
<a href="help/hdesk.php" class="nav-link ">
<span class="title">Helpdesk</span>
</a>
</li>
<?php } ?>
<li class="nav-item <?php if($currentSubSection == 'h8') { ?>active open<?php } ?>">
<a href="help/related.php" class="nav-link ">
<span class="title">Related Links</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h9') { ?>active open<?php } ?>">
<a href="help/refs.php" class="nav-link ">
<span class="title">References</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'h10') { ?>active open<?php } ?>">
<a href="help/ackn.php" class="nav-link ">
<span class="title">Acknowledgments</span>
</a>
</li>
</ul>
</li>
<!--<li class="nav-item">
<a href="/forum/" target="blank" class="nav-link nav-toggle">
<i class="icon-users"></i>
<span class="title">Forum</span>
</a>
</li>-->
<?php if(allowedRoles($_SESSION['User']['Type'], $GLOBALS['NO_GUEST'])){ ?>
<li>
<li class="nav-item <?php if($currentSection == 'hd') { ?>active open<?php } ?>">
<a href="/helpdesk/" class="nav-link nav-toggle">
<i class="icon-earphones"></i>
<span class="title">Helpdesk</span>
</a>
</li>
<?php } ?>
<!--<?php if(allowedRoles($_SESSION['User']['Type'], $GLOBALS['NO_GUEST'])){ ?>
<li class="nav-item <?php if($currentSection == 'up') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<i class="icon-user"></i>
<span class="title">User</span>
<?php if($currentSection == 'up') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'up') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSection == 'mp') { ?>active open<?php } ?>">
<a href="user/usrProfile.php" class="nav-link ">
<span class="title">My Profile</span>
</a>
</li>
</ul>
</li>
<?php } ?>
-->
<?php if(allowedRoles($_SESSION['User']['Type'], $GLOBALS['ADMIN']) || allowedRoles($_SESSION['User']['Type'], $GLOBALS['TOOLDEV'])){ ?>
<li class="nav-item <?php if($currentSection == 'ad') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<i class="icon-settings"></i>
<span class="title">Admin</span>
<?php if($currentSection == 'up') { ?><span class="selected"></span><?php } ?>
<span class="arrow <?php if($currentSection == 'ad') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<?php if(!allowedRoles($_SESSION['User']['Type'], $GLOBALS['TOOLDEV'])){ ?>
<li class="nav-item <?php if($currentSubSection == 'ds') { ?>active open<?php } ?>">
<a href="admin/dashboard.php" class="nav-link ">
<span class="title">Dashboard</span>
</a>
</li>
<?php } ?>
<?php if(!allowedRoles($_SESSION['User']['Type'], $GLOBALS['TOOLDEV'])){ ?>
<li class="nav-item <?php if($currentSubSection == 'au') { ?>active open<?php } ?>">
<a href="admin/adminUsers.php" class="nav-link ">
<span class="title">Users Administration</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'aj') { ?>active open<?php } ?>">
<a href="admin/adminJobs.php" class="nav-link ">
<span class="title">Job Administration</span>
</a>
</li>
<?php } ?>
<!--<li class="nav-item <?php if($currentSubSection == 'at') { ?>active open<?php } ?>">
<a href="admin/adminTools.php" class="nav-link ">
<span class="title">Tool Administration</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSection == 'jv') { ?>active open<?php } ?>">
<a href="admin/jsonValidator.php" class="nav-link ">
<span class="title">JSON Validator</span>
</a>
</li>-->
<li class="nav-item <?php if($currentSubSection == 'at') { ?>active open<?php } ?>">
<a href="javascript:;" class="nav-link nav-toggle">
<span class="title">My tools</span>
<span class="arrow <?php if($currentSubSection == 'at') { ?>open<?php } ?>"></span>
</a>
<ul class="sub-menu">
<li class="nav-item <?php if($currentSubSubSection == 'mt') { ?>active open<?php } ?>">
<a href="admin/adminTools.php" class="nav-link ">
<span class="title">Installed</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSubSection == 'td') { ?>active open<?php } ?>">
<a href="admin/myNewTools.php" class="nav-link ">
<span class="title">Development</span>
</a>
</li>
<li class="nav-item <?php if($currentSubSubSection == 'lg') { ?>active open<?php } ?>">
<a href="admin/logs.php" class="nav-link ">
<span class="title">Logs</span>
</a>
</li>
</ul>
</li>
</ul>
</li>
<?php } ?>
<li class="nav-item active open beta-long" style="color:#b4bcc8;margin-left:18px;margin-top:10px;font-size:12px;">This is the 1.1 version of MuG VRE</li>
<li class="nav-item active open beta-short" style="color:#b4bcc8;margin-left:8px;margin-top:10px;font-size:12px;display:none;">v1.1</li>
</ul>
<!-- END SIDEBAR MENU -->
<!-- END SIDEBAR MENU -->
</div>
<!-- END SIDEBAR -->
</div>
<!-- END SIDEBAR -->