htsworkflow/frontend/templates/samples/library_detail.html

   1 {% extends "flowcell_libraries_app.html" %}
   2 {% load humanize %}
   3
   4 {% block additional_css %}
   5 <style type="text/css">
   6   /* <![CDATA[ */
   7   div#librarydetail table, div#librarydetail td {
   8     border-style: solid;
   9   }
  10   div#librarydetail table {
  11     border-width: 0 0 1px 1px;
  12     border-spacing: 0;
  13     border-collapse: collapse;
  14   }
  15   div#librarydetail td {
  16     margin: 0;
  17     padding: 4px;
  18     border-width: 1px 1px 0 0;
  19   }
  20   div#librarydetail thead {
  21     text-align: center;
  22     }
  23   div#librarydetail tbody {
  24     text-align: right;
  25   }
  26   div#librarydetail h1,
  27   div#librarydetail h2
  28   {
  29     font-size: 150%;
  30     padding: 0.5em 0 0.5em 0;
  31   }
  32
  33   div#librarydetail h3 {
  34      font-size: 125%;
  35      padding: 0 0 0.25em 2em;
  36   }
  37
  38   div#librarydetail h4,
  39   div#librarydetail h5,
  40   div#librarydetail ul,
  41   div#librarydetail ol,
  42   div#librarydetail li
  43   {
  44     padding-left: 2em;
  45   }
  46  /* ]]> */
  47 </style>
  48 {% endblock %}
  49
  50 {% block content %}
  51 <div id="librarydetail">
  52   <h2>About this library</h2>
  53   <b>Library ID</b>: {{ lib.id }}<br/>
  54   <b>Name</b>: {{ lib.library_name }}<br/>
  55   <b>Species</b>: {{ lib.library_species.scientific_name }}<br/>
  56   <b>Affiliations</b>:
  57   <ul>
  58     {% for individual in lib.affiliations.all %}
  59       <li>{{ individual.name }} ( {{ individual.contact }} )</li>
  60     {% endfor %}
  61   </ul>
  62
  63   <h2>Raw Result Files</h2>
  64   <table>
  65   <thead>
  66     <tr>
  67       <td>Run Start Date</td>
  68       <td>Cycle</td>
  69       <td>Flowcell</td>
  70       <td>Lane</td>
  71       <td>Summary</td>
  72       <td>Eland</td>
  73       <td>Bed</td>
  74       <td>Archived</td>
  75     </tr>
  76   {% for result in eland_results %}
  77   <tr>
  78     <td>{{ result.run_date|date }}</td>
  79     <td>{{ result.cycle }}</td>
  80     <td>{{ result.flowcell_id }}</td>
  81     <td>{{ result.lane }}</td>
  82     <td><a href="{{ result.summary_url }}">Summary</a></td>
  83     <td><a href="{{ result.result_url }}">{{ result.result_label }}</a></td>
  84     <td>
  85     {% if result.bed_url %}
  86       <a href="{{ result.bed_url }}">Bed</a>
  87     {% endif %}
  88     </td>
  89     <td>
  90       {% if result.storage_ids %}
  91         {{ result.storage_ids|safe }}
  92       {% endif %}
  93     </td>
  94   </tr>
  95   {% endfor %}
  96   </table>
  97
  98   <h2>Lane Summary Statistics</h2>
  99   {% block summary_stats %}
 100   <table>
 101     <thead>
 102       <tr>
 103         <td colspan="7"></td>
 104         <td colspan="2">No Match</td>
 105         <td colspan="2">QC Failed</td>
 106         <td colspan="4">Unique</td>
 107         <td colspan="4">Repeat</td>
 108       </tr>
 109       <tr>
 110       <td>Cycles</td>
 111       <td>Flowcell</td>
 112       <td>Lane</td>
 113       <td>End</td>
 114       <td>Cluster / Tile</td>
 115       <td>pM</td>
 116       <td>Raw Reads</td>
 117       <td>total</td>
 118       <td>%</td>
 119       <td>total</td>
 120       <td>%</td>
 121       <td>0 mismatch</td>
 122       <td>1 mismatch</td>
 123       <td>2 mismatch</td>
 124       <td>Total</td>
 125       <td>0 mismatch</td>
 126       <td>1 mismatch</td>
 127       <td>2 mismatch</td>
 128       <td>Total</td>
 129       </tr>
 130     </thead>
 131     <tbody>
 132
 133       {% for lane in lane_summary_list %}
 134       <tr>
 135         <td>{{ lane.cycle_width }}</td>
 136         <td>{{ lane.flowcell_id }}</td>
 137         <td>{{ lane.lane_id }}</td>
 138         <td>{% if lane.end %}{{ lane.end }}{% endif %}</td>
 139         <td>{{ lane.clusters.0|intcomma }}</td>
 140         <td>{{ lane.successful_pm }}</td>
 141         <td>{{ lane.reads|intcomma }}</td>
 142         <td>{{ lane.no_match|intcomma }}</td>
 143         <td>{{ lane.no_match_percent|stringformat:".2f" }}</td>
 144         <td>{{ lane.qc_failed|intcomma }}</td>
 145         <td>{{ lane.qc_failed_percent|stringformat:".2f" }}</td>
 146         <td>{{ lane.match_codes.U0|intcomma }}</td>
 147         <td>{{ lane.match_codes.U1|intcomma }}</td>
 148         <td>{{ lane.match_codes.U2|intcomma }}</td>
 149         <td>{{ lane.unique_reads|intcomma }}</td>
 150         <td>{{ lane.match_codes.R0|intcomma }}</td>
 151         <td>{{ lane.match_codes.R1|intcomma }}</td>
 152         <td>{{ lane.match_codes.R2|intcomma }}</td>
 153         <td>{{ lane.repeat_reads|intcomma }}</td>
 154       </tr>
 155       {% endfor %}
 156     </tbody>
 157   </table>
 158   <br/>
 159   <hr/>
 160   <h2>Count of multi-reads</h2>
 161   {% for lane in lane_summary_list %}
 162     {% if lane.summarized_reads %}
 163     <h3>
 164       {{lane.cycle_width}} {{ lane.flowcell_id }} lane {{ lane.lane_id }}
 165       {% if lane.end %} end {{ lane.end }}{% endif %}
 166     </h3>
 167     <ul>
 168       {% for name, counts in lane.summarized_reads.items %}
 169       <li><b>{{ name }}</b>: {{ counts|intcomma }}</li>
 170       {% endfor %}
 171     </ul>
 172     {% endif %}
 173   {% endfor %}
 174   {% endblock %}
 175 </div>
 176 {% endblock %}