LIMS-1426: Allow setting of pipeline when ranking samples

api/src/Page/Sample.php

@@ -43,6 +43,7 @@ class Sample extends Page
         'capillaryPhase' => '',
         'json' => '',
         'dcp' => '\d',
+        'pipeline' => '\w+',
 
         'collected_during' => '\w+\d+-\d+',
 
@@ -1174,7 +1175,11 @@ function _samples()
               $join WHERE $where", $args);
         $tot = intval($tot[0]['TOT']);
 
-
+        # Get stats only for a specific processing pipeline
+        if ($this->has_arg('pipeline')) {
+            $where .= ' AND (app.processingprograms is null OR app.processingpipelineid is null OR app.processingpipelineid=:' . (sizeof($args) + 1) . ')';
+            array_push($args, $this->arg('pipeline'));
+        }
 
         $start = 0;
         $pp = $this->has_arg('per_page') ? $this->arg('per_page') : 15;

client/src/js/modules/shipment/views/containerplate.js

@@ -37,6 +37,7 @@ define(['marionette',
     'modules/imaging/collections/autoscoreschemas',
     'modules/imaging/collections/autoscores',
     'collections/users',
+    'collections/processingpipelines',
 
     'utils/editable',
     'views/table',
@@ -74,7 +75,7 @@ define(['marionette',
     AutoScoreSchemas, AutoScores,
 
     Users,
-
+    ProcessingPipelines,
     Editable, TableView, table, XHRImage, utils,
     template, templateimage){
 
@@ -259,6 +260,7 @@ define(['marionette',
 
             sampleStatusCurrent: 'input[id=sample_status_current]',
             param: 'select[name=param]',
+            pipeline: 'select[name=pipeline]',
             rank: 'input[name=rank]',
 
             sampleStatusAuto: 'input[id=sample_status_auto]',
@@ -291,6 +293,7 @@ define(['marionette',
 
             'click @ui.rank': 'setRankStatus',
             'change @ui.param': 'setParamValue',
+            'change @ui.pipeline': 'setPipeline',
 
             'click @ui.sampleStatusAuto': 'setSampleStatusShown',
             'change @ui.class': 'setAutoStatus',
@@ -331,6 +334,11 @@ define(['marionette',
             this.setRankStatus()
         },
 
+        setPipeline: function() {
+            this.samples.queryParams.pipeline = this.ui.pipeline.val()
+            this.samples.fetch({ data: {'sort_by': 'POSITION' } })
+        },
+
         setRankStatus: function() {
             if (this.ui.rank.is(':checked')) {
                 this.ui.sampleStatusData.prop('checked', true)
@@ -629,12 +637,20 @@ define(['marionette',
             // Assumption all plates are for vmxi, so login => users only
             this.users.queryParams.login = 1
 
+            this.processing_pipelines = new ProcessingPipelines()
+            this.processing_pipelines.queryParams.category = 'processing'
+            this.processing_pipelines.fetch().done(this.updatePipelines.bind(this))
+
             this.touchstartX = 0;
             this.touchstartY = 0;
 
             Backbone.Validation.bind(this)
         },
 
+        updatePipelines: function() {
+            this.ui.pipeline.html('<option value="">All pipelines</option>'+this.processing_pipelines.opts())
+        },
+
         updateSchemas: function() {
             if (this.autoscoreschemas.length === 1) {
                 this.ui.schemaspan.html(this.autoscoreschemas.at(0).get('SCHEMANAME'))

client/src/js/templates/shipment/containerplateimage.html

@@ -34,13 +34,14 @@ <h1 class="no_mobile">Container: <span class="NAME"><%-NAME%></span></h1>
                         Data Status
                     </label>
                     <label>
-                        Rank By
+                        - Rank By
                         <input type="checkbox" name="rank" />
                     </label>:
                     <select name="param">
                         <option value="DCRESOLUTION" data-inverted="1" data-check="DC">AP Resolution</option>
                         <option value="DCCOMPLETENESS" data-check="DC" data-min="0.85">AP Completeness</option>
                     </select>
+                    <select name="pipeline"></select>
                 </div>
                 <div>
                     <label>