From 669f57d0d8322777c7a69f82a7bb9360290d03e6 Mon Sep 17 00:00:00 2001
From: zsloan
Date: Tue, 24 Mar 2015 16:26:31 +0000
Subject: Updates to the templates

---
 wqflask/wqflask/templates/pair_scan_results.html   | 91 ++++++++++++++++++++++
 .../show_trait_calculate_correlations.html         |  2 +-
 .../templates/show_trait_mapping_tools.html        | 67 ++++++++--------
 3 files changed, 128 insertions(+), 32 deletions(-)
 create mode 100644 wqflask/wqflask/templates/pair_scan_results.html

diff --git a/wqflask/wqflask/templates/pair_scan_results.html b/wqflask/wqflask/templates/pair_scan_results.html
new file mode 100644
index 00000000..a0041e11
--- /dev/null
+++ b/wqflask/wqflask/templates/pair_scan_results.html
@@ -0,0 +1,91 @@
+{% extends "base.html" %}
+{% block title %}Interval Mapping{% endblock %}
+{% block css %}
+<!--    <link rel="stylesheet" type="text/css" href="/static/new/css/interval_mapping.css" />-->
+    <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" />
+    <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" />
+    <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" />
+    <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" />
+    <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" />
+{% endblock %}
+{% block content %} <!-- Start of body -->
+
+    {{ header("Mapping",
+        '{}: {}'.format(this_trait.name, this_trait.description_fmt)) }}
+
+    <div class="container">
+        <div>
+            <h2>
+                Pair Scan
+            </h2>
+        </div>
+        <div id="chart_container">
+            <div class="pair_scan_figure" id="pair_scan_figure">
+                <img src="/images/{{ pair_scan_filename }}.png">
+            </div>
+        </div>
+        <div>
+            <h2>
+                Results
+            </h2>
+        </div>
+    </div>
+
+    <!-- End of body -->
+
+{% endblock %}
+
+{% block js %}  
+    <script>
+        js_data = {{ js_data | safe }}
+    </script>
+
+    <!--[if lt IE 9]>
+<!--        <script language="javascript" type="text/javascript" src="/static/packages/jqplot/excanvas.js"></script>-->
+    <![endif]-->
+    <script language="javascript" type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script>
+<!--    <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/FileSaver.js/FileSaver.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/Blob.js/BlobBuilder.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.standard_fonts_metrics.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.from_html.js"></script>-->
+    <script language="javascript" type="text/javascript" src="/static/new/javascript/panelutil.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/javascript/chr_lod_chart.js"></script>
+<!--    <script language="javascript" type="text/javascript" src="/static/new/javascript/manhattan_plot.js"></script>-->
+    <script language="javascript" type="text/javascript" src="/static/new/javascript/lod_chart.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/javascript/create_lodchart.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.scientific.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script>
+    <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script>
+
+    <script type="text/javascript" charset="utf-8">
+        $(document).ready( function () {
+            console.time("Creating table");
+            $('#qtl_results').dataTable( {
+                //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>",
+                "sDom": "lTftipr",
+                "oTableTools": {
+                    "aButtons": [
+                        "copy",
+                        "print",
+                        {
+                            "sExtends":    "collection",
+                            "sButtonText": 'Save <span class="caret" />',
+                            "aButtons":    [ "csv", "xls", "pdf" ]
+                        }
+                    ],
+                    "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf"
+                },
+                "iDisplayLength": 50,
+                "bLengthChange": true,
+                "bDeferRender": true,
+                "bSortClasses": false
+            } );
+            console.timeEnd("Creating table");
+        });
+    </script>
+{% endblock %}
\ No newline at end of file
diff --git a/wqflask/wqflask/templates/show_trait_calculate_correlations.html b/wqflask/wqflask/templates/show_trait_calculate_correlations.html
index 63bbd7b6..f02d1705 100755
--- a/wqflask/wqflask/templates/show_trait_calculate_correlations.html
+++ b/wqflask/wqflask/templates/show_trait_calculate_correlations.html
@@ -2,7 +2,7 @@
     <div style="padding: 20px" class="form-horizontal">
         
         <div class="form-group">
-            <label for="corr_method" class="col-xs-1 control-label">Method</label>
+            <label for="corr_type" class="col-xs-1 control-label">Method</label>
             <div class="col-xs-2 controls">
                 <select name="corr_type" class="form-control">
                     <option value="sample">Sample r</option>
diff --git a/wqflask/wqflask/templates/show_trait_mapping_tools.html b/wqflask/wqflask/templates/show_trait_mapping_tools.html
index 7794fab5..426a5c5d 100755
--- a/wqflask/wqflask/templates/show_trait_mapping_tools.html
+++ b/wqflask/wqflask/templates/show_trait_mapping_tools.html
@@ -140,63 +140,68 @@
                             <label for="control_for" class="col-xs-2 control-label">Control&nbsp;for</label>
                             <div style="margin-left: 20px;" class="col-xs-4 controls">
                                 {% if dataset.type == 'ProbeSet' and this_trait.locus_chr != "" %}
-                                <input name="control_rqtl_geno" value="{{ nearest_marker1+","+nearest_marker2 }}" type="text" />
+                                <input name="control_rqtl_geno" value="{{ nearest_marker1+","+nearest_marker2 }}" type="text" style="width: 160px;" class="form-control" />
                                 {% else %}
-                                <input name="control_rqtl_geno" value="" type="text" />
+                                <input name="control_rqtl_geno" value="" type="text" class="form-control" />
                                 {% endif %}
                             </div>
                         </div>
 
                         <div class="mapping_method_fields form-group">
-                            <label style="text-align:left;" class="col-xs-12 control-label">Manhattan Plot</label>
+                            <label for="mapmethod_rqtl_geno" style="text-align:left;" class="col-xs-2 control-label">Method</label>
+                            <div class="col-xs-4 controls">
+                              <select name="mapmethod_rqtl_geno" class="form-control">
+                                <option value="em">em</option>
+                                <option value="imp">imp</option>
+                                <option value="hk">hk</option>
+                                <option value="ehk">ehk</option>
+                                <option value="mr">mr</option>
+                                <option value="mr-imp">mr-imp</option>
+                                <option value="mr-argmax">mr-argmax</option>
+                              </select>
+                            </div>
+                        </div>
+
+                        <div class="mapping_method_fields form-group">
+                            <label for="mapmodel_rqtl_geno" style="text-align:left;" class="col-xs-2 control-label">Model</label>
+                            <div class="col-xs-4 controls">
+                              <select name="mapmodel_rqtl_geno" class="form-control">
+                                <option value="normal">normal</option>
+                                <option value="binary">binary</option>
+                                <option value="2part">2part</option>
+                                <option value="np">np</option>
+                              </select>
+                            </div>
+                        </div>
+
+                        <div class="mapping_method_fields form-group">
+                            <label style="text-align:left;" class="col-xs-12 control-label">Pair Scan</label>
                             <div class="col-xs-12 controls">                      
                                 <label class="radio-inline">
-                                    <input type="radio" name="manhattan_plot_rqtl" value="true">
+                                    <input type="radio" name="pair_scan" value="true">
                                     Yes
                                 </label>
                                 <label class="radio-inline">
-                                    <input type="radio" name="manhattan_plot_rqtl" value="false" checked="">
+                                    <input type="radio" name="pair_scan" value="false" checked="">
                                     No
                                </label>
                             </div>
                         </div>
 
                         <div class="mapping_method_fields form-group">
-                            <label style="text-align:left;" class="col-xs-12 control-label">Method</label>
-                            <select name="mapmethod_rqtl_geno">
-                              <option value="em">em</option>
-                              <option value="imp">imp</option>
-                              <option value="hk">hk</option>
-                              <option value="ehk">ehk</option>
-                              <option value="mr">mr</option>
-                              <option value="mr-imp">mr-imp</option>
-                              <option value="mr-argmax">mr-argmax</option>
-                            </select>
-                        </div>
-
-                        <div class="mapping_method_fields form-group">
-                            <label style="text-align:left;" class="col-xs-12 control-label">Model</label>
-                            <select name="mapmodel_rqtl_geno">
-                              <option value="normal">normal</option>
-                              <option value="binary">binary</option>
-                              <option value="2part">2part</option>
-                              <option value="np">np</option>
-                            </select>
-                        </div>
-
-                        <div class="mapping_method_fields form-group">
-                            <label style="text-align:left;" class="col-xs-12 control-label">Pair Scan</label>
+                            <label style="text-align:left;" class="col-xs-12 control-label">Manhattan Plot</label>
                             <div class="col-xs-12 controls">                      
                                 <label class="radio-inline">
-                                    <input type="radio" name="pair_scan" value="true">
+                                    <input type="radio" name="manhattan_plot_rqtl" value="true">
                                     Yes
                                 </label>
                                 <label class="radio-inline">
-                                    <input type="radio" name="pair_scan" value="false" checked="">
+                                    <input type="radio" name="manhattan_plot_rqtl" value="false" checked="">
                                     No
                                </label>
                             </div>
                         </div>
+
                         <div class="form-group">
                             <div style="padding-left:15px;" class="controls">
                                 <button id="rqtl_geno_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression">
-- 
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