Update templates to consistently use {% static %} instead of hard coding paths

[htsworkflow.git] / htsworkflow / frontend / templates / samples / library_detail.html

diff --git a/htsworkflow/frontend/templates/samples/library_detail.html b/htsworkflow/frontend/templates/samples/library_detail.html
index dbab436671e60d0cfd4b007f85634d2830dedc07..65747dcac5194ca6d73191a3ad419d6c9f500fe1 100644 (file)
--- a/htsworkflow/frontend/templates/samples/library_detail.html
+++ b/htsworkflow/frontend/templates/samples/library_detail.html
@@ -1,10 +1,11 @@
 {% extends "base_site.html" %}
-{% load adminmedia humanize i18n %}
+{% load staticfiles %}
+{% load humanize i18n %}
 {% block extrahead %}
     <!-- App Stuff -->
-    <link type="text/css" rel="stylesheet" href="/static/css/app.css" />
-    <script type="text/javascript" src="/static/js/jquery.min.js"></script>
-    
+    <link type="text/css" rel="stylesheet" href="{% static "css/app.css" %}"/>
+    <script type="text/javascript" src="{% static "js/jquery.min.js" %}"></script>
+
     {% block additional_javascript %}
     {% endblock %}
 {% endblock %}
@@ -28,12 +29,13 @@
     </tr>
   </thead>
   <tbody>
+  {% if eland_results %}
     {% for result in eland_results %}
     <tr about="{{result.flowcell.get_absolute_url}}">
       <td property="libns:date" content="{{result.run_date|date:'Y-m-d\TH:i:s'}}" datatype="xsd:dateTime">{{ result.run_date|date}}</td>
       <td>{{ result.cycle }}</td>
-      <td><a href="{{result.flowcell.get_absolute_url}}"><span property="libns:flowcell_id">{{ result.flowcell_id }}</span></a></td>
-      <td><a href="{{result.lane.get_absolute_url}}" rel="libns:has_lane"><span property="libns:lane_number" datatype="xsd:decimal">{{ result.lane.lane_number }}</span></a></td>
+      <td><a href="{{result.flowcell.get_absolute_url}}"><span property="libns:flowcell_id">{{ result.flowcell_id }}</span></a>{% if user.is_staff %}<a href="{{result.flowcell.get_admin_url}}"><img class="icon_button" src="{% static "admin/img/icon_changelink.gif" %}" alt="Edit"/></a>{% endif%}</td>
+      <td>{{ result.lane.lane_number }}</td>
       <td><a href="{{ result.summary_url }}">Summary</a></td>
       <td><a href="{{ result.result_url }}">{{ result.result_label }}</a></td>
       <td>
@@ -48,9 +50,12 @@
       </td>
     </tr>
     {% endfor %}
+  {% else %}
+    <tr><td colspan="8">No data</td></tr>
+  {% endif %}
   </tbody>
   </table>
-  
+
   <h2>Lane Summary Statistics</h2>
   {% block summary_stats %}
   <table>
@@ -85,12 +90,13 @@
       </tr>
     </thead>
     <tbody>
-  
+    {% if lane_summary_list %}
       {# ls short for lane summary #}
       {% for ls in lane_summary_list %}
-      <tr about="{{ls.lane.get_absolute_url">
+      <tr about="{{ls.lane.get_absolute_url}}">
         <td>{{ ls.cycle_width }}</td>
-        <td><a href="{{ls.flowcell.get_absolute_url}}">{{ ls.flowcell_id }}</a></td>
+        <td><a href="{{ls.flowcell.get_absolute_url}}">{{ ls.flowcell_id }}</a>
+        </td>
         <td><a href="{{ls.lane.get_absolute_url}}">{{ ls.lane_id }}</a></td>
         <td>{% if ls.end %}{{ ls.end }}{% endif %}</td>
         <td>{{ ls.clusters.0|intcomma }}</td>
@@ -110,8 +116,11 @@
         <td>{{ ls.repeat_reads|intcomma }}</td>
       </tr>
       {% endfor %}
-    </tbody>
-  </table>
+      {% else %}
+       <tr><td colspan="20">No data</td></tr>
+    {% endif %}
+  </tbody>
+    </table>
 
   <h2>Flowcell Notes</h2>
   <table>
@@ -122,20 +131,52 @@
        <td>Comment</td>
       </tr>
     </thead>
+    {% if lib.lane_set.all %}
     <tbody>
       {% for lane in lib.lane_set.all %}
-      <tr rel="libns:has_lane" resource="{{lane.get_absolute_url}}">
-        <td><a href="{{lane.flowcell.get_absolute_url}}" rel="libns:flowcell">
-            <span property="libns:flowcell_id">{{ lane.flowcell.flowcell_id }}</span></a></td>
-        <td><a href="{{lane.get_absolute_url}}"> 
-            <span property="libns:lane_number"  datatype="xsd:decimal"
-               >{{ lane.lane_number }}</span></a></td>
+      <tr rel="libns:has_lane" 
+          about="{{lib.get_absolute_url}}"
+          resource="{{lane.get_absolute_url}}">
+        <td>
+          <a typeof="libns:IlluminaFlowcell" href="{{lane.flowcell.get_absolute_url}}">
+            <span property="libns:flowcell_id"
+                  >{{lane.flowcell.flowcell_id}}</span></a>
+          {% if user.is_staff %}
+            <a href="{{lane.flowcell.get_admin_url}}">
+               <img class="icon_button"
+                    src="{% static "admin/img/icon_changelink.gif" %}" alt="Edit"/>
+            </a>
+          {% endif%}
+        </td>
+        <td typeof="libns:IlluminaLane" about="{{lane.get_absolute_url}}">
+          <span rel="libns:flowcell" resource="{{lane.flowcell.get_absolute_url}}"></span>
+          <a href="{{lane.get_absolute_url}}">
+            <span property="libns:lane_number"
+               >{{ lane.lane_number }}</span>
+            </a></td>
         <td>{{ lane.comment }}</td>
       </tr>
          {% endfor %}
     </tbody>
+    {% endif %}
   </table>
+  <br/>
+  <hr/>
+  <h2>Count of multi-reads</h2>
+  {% for eland_lane in lane_summary_list %}
+    {% if eland_lane.summarized_reads %}
+    <h3>{{eland_lane.cycle_width}} {{ eland_lane.flowcell_id }} lane {{ eland_lane.lane_id }}
+      {% if eland_lane.end %} end {{ eland_lane.end }}{% endif %}
+    </h3>
+    <ul about="{{eland_lane.lane.get_absolute_url}}">
+      {% for name, counts in eland_lane.summarized_reads.items %}
+      <li rel="libns:has_mappings">
+         <b property="libns:mapped_to">{{ name }}</b>:
+         <span property="libns:reads" content="{{counts}}" datatype="xsd:integer">{{ counts|intcomma }}</span></li>
+      {% endfor %}
+    </ul>
+    {% endif %}
+  {% endfor %}
   {% endblock %}
   </div>
-</div>
 {% endblock %}