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index.html
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<!DOCTYPE html>
<html>
<head>
<title>GENtle 2</title>
<meta name="viewport" content="target-densitydpi=high-dpi">
<meta name="viewport" content="width=device-width, initial-scale=1, maximum-scale=1, user-scalable=0"/>
<meta name="apple-mobile-web-app-capable" content="yes">
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent">
<meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
<link type="text/css" href="assets/jquery/css/smoothness/jquery-ui-1.8.18.custom.css" rel="Stylesheet" />
<link rel="stylesheet" type="text/css" href="assets/bootstrap/css/bootstrap.min.css" />
<link rel="stylesheet" type="text/css" href="public/main.css" />
</head>
<body>
<div id='hoverbox'></div>
<div id='debug' style='position:fixed;left:0px;top:50px'></div>
<div id='all' style='overflow:hidden;width:100%;height:100%;padding:0px;margin:0px'>
<div class="navbar">
<div class="navbar-inner">
<div class="container-fluid">
<a class="btn btn-navbar" data-toggle="collapse" data-target=".nav-collapse">
<span class="icon-bar"></span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
</a>
<a class="brand" href="#">GENtle2</a>
<div class="nav-collapse">
<ul class="nav" id='toolbar_ul'>
<li class="dropdown" id="toolbar_plugins_file">
<a href="#" class="dropdown-toggle" data-toggle="dropdown">File<b class="caret"></b></a>
<ul class="dropdown-menu">
<li><a href='#' onclick='gentle.startNewSequenceDialog();return false'>New sequence</a></li>
<li><a data-toggle='modal' href='#openFileFromDisk'>Open from disk</a></li>
<li><a href='#' onclick='start_nbci_dialog();return false'>Open from NCBI</a></li>
<li><a id='close_sequence' href='#' onclick='gentle.closeCurrentSequence();return false'>Close sequence</a></li>
</ul>
</li>
<li class="dropdown" id='edit_menu'>
<a href="#" class="dropdown-toggle" data-toggle="dropdown">Edit<b class="caret"></b></a>
<ul class="dropdown-menu">
<li class='menu_needs_selection'><a id='edit_menu_undo' href='#' onclick='gentle.doUndo();return false'>Undo <span id='undo_action'></span></a></li>
<li class='menu_needs_selection'><a id='edit_menu_redo' href='#' onclick='gentle.doRedo();return false'>Redo <span id='redo_action'></span></a></li>
<li class="divider"></li>
<li class='menu_needs_selection'><a id='edit_menu_cut' href='#' onclick='gentle.do_edit("cut");return false'>Cut</a></li>
<li class='menu_needs_selection'><a id='edit_menu_copy' href='#' onclick='gentle.do_edit("copy");return false'>Copy</a></li>
<li class='menu_needs_selection'><a id='edit_menu_annotate' href='#' onclick='gentle.do_annotate();return false'>Annotate selection</a></li>
<li class='menu_needs_edit_mode'><a id='edit_menu_paste' href='#' onclick='gentle.do_edit("paste");return false'>Paste</a></li>
</ul>
</li>
<li class="dropdown">
<a href="#" class="dropdown-toggle" data-toggle="dropdown">Tools<b class="caret"></b></a>
<ul class="dropdown-menu">
<li><a href='#' onclick='gentle.plugins.managePlugins();return false'>Plugins</a></li>
<li><a href='#' onclick='gentle.startDesigner();return false'>Designer</a></li>
</ul>
</li>
</ul>
</div>
<ul id="toolbar-right" class="nav pull-right">
<li title='Edit name, description, and annotation'><a href='#' onclick='gentle.sequence_info();return false' class='btn-inverse'><i class='icon-info-sign icon-white'></i></a></li>
<li title='Display settings'><a href='#' onclick='gentle.toggle_display_settings();return false' class='btn-inverse'><i class='icon-cog icon-white'></i></a></li>
<li title='Loaded sequences'><a href='#' onclick='gentle.toggle_loaded_sequences();return false' class='btn-inverse'><i class='icon-list-alt icon-white'></i></a></li>
<li title='Toggle sidebar'><a href='#' onclick='gentle.toggle_right_sidebar();return false' class='btn-inverse'><i id='right_sidebar_icon' class='icon-chevron-right icon-white'></i></a></li>
</ul>
</div>
</div>
</div>
<div class='container-fluid'>
<div class='row-fluid'>
<div id='topbox' class='sidebar right well'>
</div>
<div id='main' class='content fixed-fixed'>
</div>
</div> <!--row-fluid-->
</div> <!--container-fluid-->
<div id="copywrap"><textarea id="copytb"></textarea></div><!-- This is needed for cut©. It will only be visible for a fraction of a second during copying. -->
<div class="modal" id="openFileFromDisk" style='display:none'>
<div class="modal-header">
<a class="close" data-dismiss="modal">×</a>
<h3>Open file from disk</h3>
</div>
<div class="modal-body">
<p>
<input type="file" id="files" name="files[]" multiple size='10' />
</p>
</div>
</div>
<div id='sb_display_options'></div>
<div id='sb_sequences_container' style='display:none' title='Loaded sequences'>
<div id='sb_sequences_table_container'></div>
</div>
<div id='zoombox'>
</div>
</div>
<div id="drop_zone"><div>Drop files here</div></div>
<div id='gentle_alerts' style='position:fixed;left:2px;bottom:2px;z-index:99'></div>
<!-- Load third-party assets -->
<script type="text/javascript" src="assets/jquery/js/jquery-1.7.1.min.js"></script>
<script type="text/javascript" src="assets/jquery/js/jquery-ui-1.8.17.custom.min.js"></script>
<script type="text/javascript" src="assets/bootstrap/js/bootstrap.min.js"></script>
<script type="text/javascript" src="assets/bootstrap/js/bootstrap-button.js"></script>
<script type="text/javascript" src="assets/bootstrap/js/bootstrap-collapse.js"></script>
<script type="text/javascript" src="assets/bootstrap/js/bootstrap-tab.js"></script>
<script type="text/javascript" src="assets/bootstrap/js/bootstrap-popover.js"></script>
<script type="text/javascript" src="assets/mousewheel.js"></script>
<script type="text/javascript" src="assets/FileSaver.js"></script>
<script type="text/javascript" src="assets/DoubleTap.js"></script>
<script type="text/javascript" src="assets/listAttributes.js"></script>
<!-- Load GENtle code-->
<script type="text/javascript" src="data/data.js"></script>
<script type="text/javascript" src="config.js"></script>
<script type="text/javascript" src="util/topDisplay/top_display.js"></script>
<script type="text/javascript" src="util/sequence/undo.js"></script>
<script type="text/javascript" src="util/sequence/sequences.js"></script>
<script type="text/javascript" src="util/sequence/sequence_canvas.js"></script>
<script type="text/javascript" src="util/sequence/sequence_canvas_dna.js"></script>
<script type="text/javascript" src="util/sequence/sequence_canvas_designer.js"></script>
<script type="text/javascript" src="util/sequence/sequence_canvas_rows.js"></script>
<script type="text/javascript" src="util/sequence/sequence_info.js"></script>
<script type="text/javascript" src="util/file/filetypes.js"></script>
<script type="text/javascript" src="util/file/ncbi.js"></script>
<script type="text/javascript" src="common.js"></script>
<script type="text/javascript" src="main.js"></script>
<script type="text/javascript" src="plugins.js"></script>
</body>
</html>