Mercurial > repos > brasset_jensen > srnapipe

diff test-data/res_files/reads-sample-small.fastq-siRNAs-genome.html @ 61:9185ca0a7b43 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Updated package according to recommendations.
author pierre.pouchin
date Wed, 16 Jan 2019 08:18:13 -0500
parents
children 11708af40030
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/res_files/reads-sample-small.fastq-siRNAs-genome.html	Wed Jan 16 08:18:13 2019 -0500
@@ -0,0 +1,397 @@
+
+  <!DOCTYPE html>
+  <html lang="en">
+  <head>
+  <meta charset="utf-8">
+  <title>pipeline</title>
+  <meta name="viewport" content="width=device-width, initial-scale=1.0">
+  <meta name="description" content="">
+  <meta name="author" content="">
+  <!-- Le styles -->
+  <link href="css/bootstrap.css" rel="stylesheet">
+  <link href="css/bootstrap-table.css" rel="stylesheet">
+  <style type="text/css">
+  body {
+    padding-top: 60px;
+    padding-bottom: 40px;
+  }
+  div#page {
+    width: 940px;
+    background-color: #fff;
+    margin: 0 auto;
+    text-align: left;
+    border-color: #fff;
+    border-style: none solid solid;
+    border-width: medium 1px 1px;
+  }
+
+  div.content {
+   	display: none;
+	  float: right;
+	  width: 550px;
+  }
+  div.content a, div.navigation a {
+    text-decoration: none;
+   	color: #777;
+  }
+  div.content a:focus, div.content a:hover, div.content a:active {
+    text-decoration: underline;
+  }
+  
+  div.controls {
+    margin-top: 5px;
+	  height: 23px;
+  }
+  
+  div.controls a {
+	  padding: 5px;
+  }
+  div.ss-controls {
+	  float: left;
+  }
+  div.nav-controls {
+	  float: right;
+  }
+  div.slideshow-container {
+	  position: relative;
+	  clear: both;
+	  height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
+  }
+  div.loader {
+  	position: absolute;
+  	top: 0;
+  	left: 0;
+    background-image: url('loader.gif');
+    background-repeat: no-repeat;
+    background-position: center;
+  	width: 550px;
+  	height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
+  }
+  div.slideshow {
+    
+  }
+  
+  div.slideshow span.image-wrapper {
+	  display: block;
+	  position: absolute;
+	  top: 0;
+	  left: 0;
+  }
+  div.slideshow a.advance-link {
+	  display: block;
+ 	  width: 550px;
+    height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
+    line-height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
+    text-align: center;
+  }
+  div.slideshow a.advance-link:hover, div.slideshow a.advance-link:active, div.slideshow a.advance-link:visited {
+    text-decoration: none;
+  }
+  div.slideshow img {
+    vertical-align: middle;
+	border: 1px solid #ccc;
+  }
+
+  div.image-title {
+    font-weight: bold;
+    font-size: 1.4em;
+  }
+
+  div.image-desc {
+    line-height: 1.3em;
+    padding-top: 12px;
+  }
+  div.navigation {
+
+  }
+  ul.thumbs {
+	clear: both;
+	margin: 0;
+	padding: 0;
+  }
+  ul.thumbs li {
+	float: none;
+	padding: 0;
+	margin: 0;
+    list-style: none;
+  }
+  a.thumb {
+	padding: 0;
+	display: inline;
+	border: none;
+  }
+  ul.thumbs li.selected a.thumb {
+	color: #000;
+    font-weight: bold;
+  }
+  a.thumb:focus {
+	outline: none;
+  }
+  ul.thumbs img {
+	border: none;
+	display: block;
+  }
+  div.pagination {
+	clear: both;
+  }
+  div.navigation div.top {
+    margin-bottom: 12px;
+	height: 11px;
+  }
+  div.navigation div.bottom {
+    margin-top: 12px;
+  }
+  div.pagination a, div.pagination span.current, div.pagination span.ellipsis {
+	display: block;
+	float: left;
+    margin-right: 2px;
+	padding: 4px 7px 2px 7px;
+	border: 1px solid #ccc;
+  }
+  div.pagination a:hover {
+    background-color: #eee;
+    text-decoration: none;
+  }
+  div.pagination span.current {
+    font-weight: bold;
+    background-color: #000;
+    border-color: #000;
+	color: #fff;
+  }
+  div.pagination span.ellipsis {
+	border: none;
+	padding: 5px 0 3px 2px;
+  }
+  
+  div.download {
+	float: right;
+  }
+  
+  div.caption-container {
+	position: relative;
+	clear: left;
+	height: 75px;
+  }
+  span.image-caption {
+	display: block;
+	position: absolute;
+	width: 550px;
+	top: 0;
+	left: 0;
+  }
+  div.caption {
+	padding: 12px;
+  }
+
+  /* Featurettes
+  ------------------------- */
+
+  .featurette {
+  padding-top: 20px; /* Vertically center images part 1: add padding above and below text. */
+  overflow: hidden; /* Vertically center images part 2: clear their floats. */
+  text-align: center;
+  }
+
+  .featurette-p
+  {
+   text-align: left;
+  }
+
+  .featurette-image {
+  margin-top: 10px; /* Vertically center images part 3: negative margin up the image the same amount of the padding to center it. */
+  width: 450px;
+  height: auto;
+  }
+
+  </style>
+  <link href="css/bootstrap-responsive.css" rel="stylesheet">
+  </head>
+  <body>
+  
+  <div class="navbar navbar-inverse navbar-fixed-top">
+  <div class="navbar-inner">
+  <div class="container">
+  <button type="button" 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>
+  </button>
+  <a class="brand" href="report.txt">Report</a>
+  <div class="nav-collapse collapse">
+  <ul class="nav">
+  <li class="active"><a href="reads-sample-small.fastq.html">reads-sample-small.fastq</a></li>
+  </ul>
+  </div><!--/.nav-collapse -->
+  </div>
+  </div>
+  </div>
+  <div class="container">
+  <div class="featurette">
+  <h1>Genome</h1>
+  <p class="featurette-p">
+  <A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_minus.bedgraph">bedgraph minus strand</A><br/> 
+<A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_plus.bedgraph">bedgraph plus strand</A><br/> 
+<A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_sorted.bam">genome mappers (sorted bam)</A><br/> 
+<A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_unique_minus.bedgraph">bedgraph unique minus strand</A><br/> 
+<A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_unique_plus.bedgraph">bedgraph unique plus strand</A><br/> 
+<A HREF="reads-sample-small.fastq/subgroups/siRNAs//siRNAs-genome_unique_sorted.bam">genome unique mappers (sorted bam)</A><br/> 
+
+  </p>
+  </div>
+  </div>
+  
+  <div id="page">
+  <div id="container">
+  <div class="each-gallery">
+  <div id="gallery" class="content">
+  <div id="controls0" class="controls"></div>
+  <div class="slideshow-container">
+  <div id="loading0" class="loader"></div>
+  <div id="slideshow0" class="slideshow"></div>
+  </div>
+  <div id="caption0" class="caption-container">Uniquely mapped reads</div>
+  </div>
+  <div id="thumbs0" class="navigation">
+  <input type="text" id="myInput0" onkeyup="search(this)" placeholder="Search for names...">
+  <ul class="thumbs noscript">
+  
+    <li>
+    <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/unique/chrom_1.png" title="chrom_1">chrom_1</a>
+    </li>
+    
+    <li>
+    <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/unique/chrom_2.png" title="chrom_2">chrom_2</a>
+    </li>
+    
+    <li>
+    <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/unique/chrom_4.png" title="chrom_4">chrom_4</a>
+    </li>
+    
+    <li>
+    <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/unique/chrom_5.png" title="chrom_5">chrom_5</a>
+    </li>
+    
+    <li>
+    <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/unique/chrom_6.png" title="chrom_6">chrom_6</a>
+    </li>
+    
+  </ul>
+  </div>
+  </div>
+  <div id="page">
+  <div id="container">
+  <div class="each-gallery">
+  <div id="gallery" class="content">
+  <div id="controls1" class="controls"></div>
+  <div class="slideshow-container">
+  <div id="loading1" class="loader"></div>
+  <div id="slideshow1" class="slideshow"></div>
+  </div>
+  <div id="caption1" class="caption-container">Reads randomly assigned</div>
+  </div>
+  <div id="thumbs1" class="navigation">
+  <input type="text" id="myInput1" onkeyup="search(this)" placeholder="Search for names...">
+  <ul class="thumbs noscript">
+  
+        <li>
+        <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/rand/chrom_1.png" title="chrom_1">chrom_1</a>
+        </li>
+        
+        <li>
+        <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/rand/chrom_2.png" title="chrom_2">chrom_2</a>
+        </li>
+        
+        <li>
+        <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/rand/chrom_4.png" title="chrom_4">chrom_4</a>
+        </li>
+        
+        <li>
+        <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/rand/chrom_5.png" title="chrom_5">chrom_5</a>
+        </li>
+        
+        <li>
+        <a class="thumb"  href="reads-sample-small.fastq/subgroups/siRNAs//Gviz_genome/rand/chrom_6.png" title="chrom_6">chrom_6</a>
+        </li>
+        
+  </ul>
+  </div>
+  <div style="clear: both;"></div></div>
+  </div>
+  </div>
+  
+  <!-- FOOTER -->
+  <div class="container">
+  <footer>
+  
+  </footer>
+  </div>
+  <!-- Le javascript
+  ================================================== -->
+  <!-- Placed at the end of the document so the pages load faster -->
+  <script type="text/javascript" src="js/filter.js"></script>
+  <script type="text/javascript" src="js/jquery.js"></script>
+  <script type="text/javascript" src="js/jquery-1.3.2.js"></script>
+  <script type="text/javascript" src="js/jquery.galleriffic.js"></script>
+  <script type="text/javascript" src="js/jquery.opacityrollover.js"></script>
+  <script type="text/javascript" src="js/bootstrap-table.js"></script>
+  <script type="text/javascript" src="js/bootstrap.min.js"></script>
+  <script type="text/javascript">
+  jQuery(document).ready(function($) {
+    // We only want these styles applied when javascript is enabled
+    $('div.navigation').css({'width' : '300px', 'float' : 'left'});
+    $('div.content').css('display', 'block');
+    
+    $(".each-gallery").each(function(i){
+      // Initially set opacity on thumbs and add
+      // additional styling for hover effect on thumbs
+        var onMouseOutOpacity = 0.67;
+      $('#thumbs + i + ul.thumbs li').opacityrollover({
+      mouseOutOpacity:   onMouseOutOpacity,
+      mouseOverOpacity:  1.0,
+      fadeSpeed:         'fast',
+      exemptionSelector: '.selected'
+      });
+      
+      // Initialize Advanced Galleriffic Gallery
+      var gallery = $('#thumbs'+i).galleriffic({
+      delay:                     2500,
+      numThumbs:                 22,
+      preloadAhead:              10,
+      enableTopPager:            true,
+      enableBottomPager:         true,
+      maxPagesToShow:            7,
+      imageContainerSel:         '#slideshow'+ i,
+      controlsContainerSel:      '#controls' + i,
+      captionContainerSel:       '#caption' + i,
+      loadingContainerSel:       '#loading' + i,
+      renderSSControls:          true,
+      renderNavControls:         true,
+      playLinkText:              'Play',
+      pauseLinkText:             'Pause',
+      prevLinkText:              '&lsaquo; Previous',
+      nextLinkText:              'Next &rsaquo;',
+      nextPageLinkText:          'Next &rsaquo;',
+      prevPageLinkText:          '&lsaquo; Prev',
+      enableHistory:             false,
+      autoStart:                 false,
+      syncTransitions:           true,
+      defaultTransitionDuration: 900,
+      onSlideChange:             function(prevIndex, nextIndex) {
+        // 'this' refers to the gallery, which is an extension of $('#thumbs')
+        this.find('ul.thumbs').children()
+        .eq(prevIndex).fadeTo('fast', onMouseOutOpacity).end()
+        .eq(nextIndex).fadeTo('fast', 1.0);
+      },
+      onPageTransitionOut:       function(callback) {
+        this.fadeTo('fast', 0.0, callback);
+      },
+      onPageTransitionIn:        function() {
+        this.fadeTo('fast', 1.0);
+      }
+      });
+    });
+  });
+  </script>
+  </body>
+  </html>
+  
\ No newline at end of file