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   /* ]]> */
  27 </style>
  28 {% endblock %}
  29
  30 {% block content %}
  31 <div id="librarydetail">
  32   <h2>About this library</h2>
  33   <b>Library ID</b>: {{ lib.id }}<br/>
  34   <b>Name</b>: {{ lib.library_name }}<br/>
  35   <b>Species</b>: {{ lib.library_species.scientific_name }}<br/>
  36   <b>Affiliations</b>:
  37   <ul>
  38     {% for individual in lib.affiliations.all %}
  39       <li>{{ individual.name }} ( {{ individual.contact }} )</li>
  40     {% endfor %}
  41   </ul>
  42
  43   <h2>Raw Result Files</h2>
  44   <table>
  45   <thead>
  46     <tr>
  47       <td>Cycle</td>
  48       <td>Flowcell</td>
  49       <td>Lane</td>
  50       <td>Summary</td>
  51       <td>Eland</td>
  52       <td>Bed</td>
  53       <td>Archived</td>
  54     </tr>
  55   {% for result in eland_results %}
  56   <tr>
  57     <td>{{ result.cycle }}</td>
  58     <td>{{ result.flowcell_id }}</td>
  59     <td>{{ result.lane }}</td>
  60     <td><a href="{{ result.summary_url }}">Summary</a></td>
  61     <td><a href="{{ result.result_url }}">{{ result.result_label }}</a></td>
  62     <td>
  63     {% if result.bed_url %}
  64       <a href="{{ result.bed_url }}">Bed</a>
  65     {% endif %}
  66     </td>
  67     <td>
  68       {% if result.storage_ids %}
  69         {{ result.storage_ids|safe }}
  70       {% endif %}
  71     </td>
  72   </tr>
  73   {% endfor %}
  74   </table>
  75
  76   <h2>Lane Summary Statistics</h2>
  77   {% block summary_stats %}
  78   <table>
  79     <thead>
  80       <tr>
  81         <td colspan="7"></td>
  82         <td colspan="2">No Match</td>
  83         <td colspan="2">QC Failed</td>
  84         <td colspan="4">Unique</td>
  85         <td colspan="4">Repeat</td>
  86       </tr>
  87       <tr>
  88       <td>Cycles</td>
  89       <td>Flowcell</td>
  90       <td>Lane</td>
  91       <td>End</td>
  92       <td>Cluster / Tile</td>
  93       <td>pM</td>
  94       <td>Raw Reads</td>
  95       <td>total</td>
  96       <td>%</td>
  97       <td>total</td>
  98       <td>%</td>
  99       <td>0 mismatch</td>
 100       <td>1 mismatch</td>
 101       <td>2 mismatch</td>
 102       <td>Total</td>
 103       <td>0 mismatch</td>
 104       <td>1 mismatch</td>
 105       <td>2 mismatch</td>
 106       <td>Total</td>
 107       </tr>
 108     </thead>
 109     <tbody>
 110
 111       {% for lane in lane_summary_list %}
 112       <tr>
 113         <td>{{ lane.cycle_width }}</td>
 114         <td>{{ lane.flowcell_id }}</td>
 115         <td>{{ lane.lane_id }}</td>
 116         <td>{% if lane.end %}{{ lane.end }}{% endif %}</td>
 117         <td>{{ lane.clusters.0|intcomma }}</td>
 118         <td>{{ lane.successful_pm }}</td>
 119         <td>{{ lane.reads|intcomma }}</td>
 120         <td>{{ lane.no_match|intcomma }}</td>
 121         <td>{{ lane.no_match_percent|stringformat:".2f" }}</td>
 122         <td>{{ lane.qc_failed|intcomma }}</td>
 123         <td>{{ lane.qc_failed_percent|stringformat:".2f" }}</td>
 124         <td>{{ lane.match_codes.U0|intcomma }}</td>
 125         <td>{{ lane.match_codes.U1|intcomma }}</td>
 126         <td>{{ lane.match_codes.U2|intcomma }}</td>
 127         <td>{{ lane.unique_reads|intcomma }}</td>
 128         <td>{{ lane.match_codes.R0|intcomma }}</td>
 129         <td>{{ lane.match_codes.R1|intcomma }}</td>
 130         <td>{{ lane.match_codes.R2|intcomma }}</td>
 131         <td>{{ lane.repeat_reads|intcomma }}</td>
 132       </tr>
 133       {% endfor %}
 134     </tbody>
 135   </table>
 136   <br/>
 137   <hr/>
 138   <h2>Count of multi-reads</h2>
 139   {% for lane in lane_summary_list %}
 140     {% if lane.summarized_reads %}
 141     <h3>
 142       {{lane.cycle_width}} {{ lane.flowcell_id }} lane {{ lane.lane_id }}
 143       {% if lane.end %} end {{ lane.end }}{% endif %}
 144     </h3>
 145     <ul>
 146       {% for name, counts in lane.summarized_reads.items %}
 147       <li><b>{{ name }}</b>: {{ counts|intcomma }}</li>
 148       {% endfor %}
 149     </ul>
 150     {% endif %}
 151   {% endfor %}
 152   {% endblock %}
 153 </div>
 154 {% endblock %}