Added low abundance warnings for specificity search

proost · Sep 19, 2017 · 9edec97 · 9edec97
1 parent 02a3a6a
commit 9edec97
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Showing 2 changed files with 10 additions and 1 deletion.
diff --git a/planet/controllers/search.py b/planet/controllers/search.py
@@ -3,6 +3,7 @@
 from flask import g, Blueprint, flash, request, redirect, url_for, render_template, Response, current_app
 from sqlalchemy import func
 from sqlalchemy.sql import or_
+from sqlalchemy.orm import joinedload
 
 from planet import cache
 from planet.forms.search_enriched_clusters import SearchEnrichedClustersForm
@@ -220,7 +221,13 @@ def search_specific_profiles():
 
         species = Species.query.get_or_404(species_id)
         method = ExpressionSpecificityMethod.query.get_or_404(method_id)
-        results = ExpressionSpecificity.query.filter(ExpressionSpecificity.method_id == method_id).filter(ExpressionSpecificity.score>=cutoff).filter(ExpressionSpecificity.condition == condition)
+        results = ExpressionSpecificity.query.\
+            filter(ExpressionSpecificity.method_id == method_id).\
+            filter(ExpressionSpecificity.score>=cutoff).\
+            filter(ExpressionSpecificity.condition == condition).\
+            options(
+                joinedload(ExpressionSpecificity.profile).undefer("profile")
+            )
 
         return render_template("search_specific_profiles.html", results=results, species=species, method=method, condition=condition)
 

diff --git a/planet/templates/search_specific_profiles.html b/planet/templates/search_specific_profiles.html
@@ -78,6 +78,7 @@ <h1><em>{{species.name}}</em> profiles specific for <strong>{{condition}}</stron
                 <th data-sort="float"><span class="sort-icon"></span><abbr title="Click to show help" href="{{ url_for('help.help_topic', topic='entropy') }}" data-target="#helpModal">Entropy</abbr> score</th>
                 <th data-sort="float"><span class="sort-icon"></span><abbr title="Click to show help" href="{{ url_for('help.help_topic', topic='tau') }}" data-target="#helpModal">Tau</abbr> score</th>
                 <th data-sort="float">Action</th>
+                <th>Info</th>
             </tr>
             </thead>
             <tbody>
@@ -91,6 +92,7 @@ <h1><em>{{species.name}}</em> profiles specific for <strong>{{condition}}</stron
                         <td>{{ r.entropy|round(2) }}</td>
                         <td>{% if r.tau %}{{ r.tau|round(2) }}{% else %}<span class="text-muted">None</span>{% endif %}</td>
                         <td><a href="{{url_for('expression_profile.expression_profile_view', profile_id=r.profile_id)}}">view profile</a></td>
+                        <td>{% if r.profile.low_abundance %}<span class="warning-message"><i class="fa fa-exclamation-triangle" aria-hidden="true"></i></span>{% endif %}</td>
                     </tr>
                 {% endif %}
             {% endfor %}