Namespace all modules under gn2.

We move all modules under a gn2 directory. This is important for
"correct" packaging and deployment as a Guix service.

1 files changed, 168 insertions, 0 deletions

diff --git a/gn2/wqflask/templates/oauth2/data-list-mrna.html b/gn2/wqflask/templates/oauth2/data-list-mrna.html
new file mode 100644
index 00000000..0e163235
--- /dev/null
+++ b/gn2/wqflask/templates/oauth2/data-list-mrna.html
@@ -0,0 +1,168 @@
+{%extends "base.html"%}
+{%from "oauth2/profile_nav.html" import profile_nav%}
+{%from "oauth2/display_error.html" import display_error%}
+
+{%block title%}Link Data: Genotype{%endblock%}
+
+{%block css%}
+<link rel="stylesheet" type="text/css"
+      href="/css/DataTables/css/jquery.dataTables.css" />
+<link rel="stylesheet" type="text/css"
+      href="https://code.jquery.com/ui/1.12.1/themes/base/jquery-ui.css" />
+<link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" />
+{%endblock%}
+
+{%block content%}
+<div class="container" style="width: 98%;">
+  {{profile_nav("data", user_privileges)}}
+
+  {{flash_me()}}
+
+  <div class="row">
+    <noscript>This page needs javascript to work correctly</noscript>
+  </div>
+
+  <div class="row">
+    <form id="frm-link" method="POST"
+	  action="{{url_for('oauth2.data.link_mrna_data')}}">
+      <legend>Link mRNA Assay Datasets to Group</legend>
+
+      <input type="hidden" name="species_name" value="{{species_name}}" />
+
+      <div class="form-group">
+	<label for="select-group">Group</label>
+	<select id="select-group" name="group_id" required="required"
+		class="form-control">
+	  <option value="">Select group</option>
+	  {%for group in groups%}
+	  <option value="{{group.group_id}}">{{group.group_name}}</option>
+	  {%endfor%}
+	</select>
+      </div>
+
+      <div class="form-group">
+      <table id="tbl-link"
+	     class="table-hover table-striped cell-border dataTable no-footer"
+	     data-datasets='{{selected_datasets | list | tojson}}'>
+	<thead>
+	  <tr>
+	    <th>Deselect</th>
+	    <th>Group</th>
+	    <th>Dataset Name</th>
+	    <th>Dataset FullName</th>
+	    <th>Dataset ShortName</th>
+	  </tr>
+	</thead>
+	<tbody>
+	  {%for dataset in selected_datasets%}
+	  <tr>
+	    <td>
+	      <input type="checkbox" class="checkbox checkbox-selected"
+		     name="selected"
+		     value='{{dataset | tojson}}' />
+	    </td>
+	    <td>{{dataset.dataset_name}}</td>
+	    <td>{{dataset.dataset_fullname}}</td>
+	    <td>{{dataset.dataset_shortname}}</td>
+	  </tr>
+	  {%else%}
+	  <tr>
+	    <td colspan="100%" align="center">
+	      <span class="glyphicon glyphicon-info-sign text-info"></span>
+	      &nbsp
+	      No datasets selected for linking.
+	    </td>
+	  </tr>
+	  {%endfor%}
+	</tbody>
+      </table>
+      </div>
+
+      <div class="form-group text-center">
+	<input type="submit" value="Link Selected"
+	       class="btn btn-primary"
+	       style="border-top: 0.3em;"
+	       {%if groups | length <= 0 or selected_datasets | length <= 0%}
+	       disabled="disabled"
+	       {%endif%} />
+      </div>
+    </form>
+  </div>
+
+  <div class="row">
+    <span id="search-messages" class="alert-danger" style="display:none"></span>
+    <form id="frm-search"
+	  action="{{search_uri}}"
+	  method="POST">
+      <legend>Search: mRNA Assay</legend>
+      <input type="hidden" value="{{species_name}}" name="species"
+	     id="txt-species-name" />
+      <input type="hidden" value="{{dataset_type}}" name="dataset_type"
+	     id="txt-dataset-type"  />
+      <input type="hidden" value="{{per_page}}" name="per_page"
+	     id="txt-per-page"  />
+
+      <div class="form-group">
+	<label for="txt-query">Dataset Search String</label>
+	<input type="text" id="txt-query" name="query" class="form-control"
+	       value="{{query}}"/>
+      </div>
+    </form>
+  </div>
+
+  <div class="row">
+    <div id="search-error" class="text-danger" style="display: none;">
+      <span class="glyphicon glyphicon-exclamation-sign"></span>
+      &nbsp
+      <span id="search-error-text"></span>
+    </div>
+    <table id="tbl-search"
+	   class="table-hover table-striped cell-border dataTable no-footer"
+	   data-datasets='{{datasets | list | tojson}}'>
+      <thead>
+	<tr>
+	  <th>Select</th>
+	  <th>Group</th>
+	  <th>Study Name</th>
+	  <th>Dataset Name</th>
+	  <th>Dataset FullName</th>
+	  <th>Dataset ShortName</th>
+	</tr>
+      </thead>
+      <tbody>
+	{%for dataset in datasets:%}
+	<tr>
+	  <td>
+	    <input type="checkbox" class="checkbox checkbox-search"
+		   name="search_datasets"
+		   value='{{dataset | tojson}}' />
+	  </td>
+	  <td>{{dataset.InbredSetName}}</td>
+	  <td>{{dataset.StudyName}}</td>
+	  <td>{{dataset.dataset_name}}</td>
+	  <td>{{dataset.dataset_fullname}}</td>
+	  <td>{{dataset.dataset_shortname}}</td>
+	</tr>
+        {%else%}
+	<tr>
+	  <td colspan="100%" align="center">
+	      <span class="glyphicon glyphicon-info-sign text-info"></span>
+	      &nbsp
+	      No datasets available for selection.
+	  </td>
+	</tr>
+	{%endfor%}
+      </tbody>
+    </table>
+  </div>
+
+
+</div>
+{%endblock%}
+
+{%block js%}
+<script src="/static/new/javascript/auth/search.js"
+	language="javascript" type="text/javascript"></script>
+<script src="/static/new/javascript/auth/search_mrna.js"
+	language="javascript" type="text/javascript"></script>
+{%endblock%}