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, 119 insertions, 0 deletions

diff --git a/gn2/wqflask/templates/marker_regression.html b/gn2/wqflask/templates/marker_regression.html
new file mode 100644
index 00000000..b633f815
--- /dev/null
+++ b/gn2/wqflask/templates/marker_regression.html
@@ -0,0 +1,119 @@
+{% from "base_macro.html" import header %}
+{% block content %}
+    {{ header("Mapping",
+        '{}: {}'.format(this_trait.name, this_trait.description_fmt)) }}
+
+    <div class="container">
+        <div>
+            <h2>
+                Whole Genome Mapping
+            </h2>
+            <form style ='float: left; padding: 5px;' id="exportform" action="export" method="post">
+              <input type="hidden" id="data" name="data" value="">
+              <input type="hidden" id="filename" name="filename" value="">
+              <input type="submit" id="export" value="Download SVG">
+            </form>
+            <form style ='float: left; padding: 5px;' id="exportpdfform" action="export_pdf" method="post">
+              <input type="hidden" id="data" name="data" value="">
+              <input type="hidden" id="filename" name="filename" value="">
+              <input type="submit" id="export_pdf" value="Download PDF">
+            </form>
+            <button id="return_to_full_view" class="btn" style="display:none">Return to full view</button>
+        </div>
+        <div id="chart_container">
+            <div class="qtlcharts" id="topchart">
+                
+            </div>
+        </div>
+        <div style="width:60%;">
+            <h2>
+                Results
+            </h2>
+            <table id="qtl_results" class="table table-hover table-striped">
+                <thead>
+                    <tr>
+                        <th></th>
+                        <th>Index</th>
+                        <th>{{ score_type }}</th>
+                        <th>Chr</th>
+                        {% if mapping_scale == "centimorgan" %}
+                        <th>cM</th>
+                        {% else %}
+                        <th>Mb</th>
+                        {% endif %}
+                        <th>Locus</th>
+                   </tr>
+                </thead>
+                <tbody>
+                    {% for marker in qtl_results %}
+                        {% if (score_type == "LOD" and marker.lod_score > cutoff) or
+                              (score_type == "LRS" and marker.lrs_value > cutoff) %}
+                        <tr>
+                            <td>
+                                <input type="checkbox" name="selectCheck"
+                                       class="checkbox edit_sample_checkbox"
+                                       value="{{ marker.name }}" checked="checked">
+                            </td>
+                            <Td align="right">{{ loop.index }}</Td>
+                            {% if score_type == "LOD" %}
+                            <td>{{ '%0.2f' | format(marker.lod_score|float) }}</td>
+                            {% else %}
+                            <td>{{ '%0.2f' | format(marker.lrs_value|float) }}</td>
+                            {% endif %}
+                            <td>{{marker.chr}}</td>
+                            <td>{{ '%0.6f' | format(marker.Mb|float) }}</td>
+                            <td>
+                                {{ marker.name }}
+                                <!--<a href="{{ url_for('show_trait_page',
+                                        trait_id = marker.name,
+                                        dataset = dataset.name
+                                        )}}">
+                                    {{ marker.name }}
+                                </a>-->
+                            </td>
+                        </tr>
+                        {% endif %}
+                    {% endfor %}
+                </tbody>
+            </table>
+        </div>
+    </div>
+
+    <!-- End of body -->
+
+{% endblock %}
+
+{% block js %}  
+    <script>
+        js_data = {{ js_data | safe }}
+    </script>
+
+    <script type="text/javascript" charset="utf-8">
+        $(document).ready( function () {
+            console.time("Creating table");
+            $('#qtl_results').dataTable( {
+                "columns": [
+                    { "type": "natural", "bSortable": false },
+                    { "type": "natural" },
+                    { "type": "natural" },
+                    { "type": "natural" },
+                    { "type": "natural" },
+                    { "type": "natural" }
+                    ],
+                "buttons": [
+                    'csv'
+                ],
+                "sDom": "RZBtir",
+                "iDisplayLength": -1,
+                "autoWidth": true,
+                "bDeferRender": true,
+                "bSortClasses": false,
+                "scrollY": "700px",
+                "scrollCollapse": true,
+                "paging": false
+            } );
+            console.timeEnd("Creating table");
+
+        });
+    </script>
+{% endblock %}