From a1e050bb6b4b4ddd37881daa74d7f12dccce0b0f Mon Sep 17 00:00:00 2001
From: gebele <gebele@in-silico.ch>
Date: Fri, 20 Oct 2017 12:50:37 +0000
Subject: adjusted order of elements

---
 views/batch.haml      | 34 ++++++++++++++++------------------
 views/predict.haml    |  2 +-
 views/prediction.haml | 42 +++++++++++++++++++++---------------------
 3 files changed, 38 insertions(+), 40 deletions(-)

(limited to 'views')

diff --git a/views/batch.haml b/views/batch.haml
index aaa09bf..fccd88c 100644
--- a/views/batch.haml
+++ b/views/batch.haml
@@ -26,10 +26,10 @@
     // create request
     if (model == "Cramer"){
       var dataset = '#{@dataset.id}';
-      var uri = "#{to("/batch/")}" + model + '/?dataset=' + escape(dataset) + '&tmppath=' + tmppath + '&last=' + last;
+      var uri = "#{to("/batch/")}" + model + '/?dataset=' + escape(dataset) + '&tmppath=' + tmppath;
     } else {
       var dataset = '#{@dataset.id}';
-      var uri = "#{to("/batch/")}" + model + '/?compound=' + escape(compound) + '&dataset=' + dataset + '&idx=' + idx + '&tmppath=' + tmppath + '&last=' + last;
+      var uri = "#{to("/batch/")}" + model + '/?compound=' + escape(compound) + '&dataset=' + dataset + '&idx=' + idx + '&tmppath=' + tmppath;
     };
     var aClient = new HttpClient();
     aClient.get(uri, function(res) {
@@ -56,15 +56,20 @@
           if (response['db_hit'] != false){
             var value = document.createTextNode(response['db_hit']);
             p.appendChild(value);
+            var h2 = document.createElement("h5");
+            var t = document.createTextNode("Measurements:");
+            h2.appendChild(t);
+            p.appendChild(h2);
+            for (var i=0; i<response['measurements'].length; i++){
+              var value = document.createTextNode(response['measurements'][i]);
+              var br = document.createElement("br");
+              p.appendChild(value);
+              p.appendChild(br);
+            };
           };
-          // Structural alerts
-          var h2 = document.createElement("h5");
-          var t = document.createTextNode("Structural alerts:");
-          h2.appendChild(t);
-          p.appendChild(h2);
-          // prediction
+          // Consensus prediction
           var h3 = document.createElement("h5");
-          var t = document.createTextNode("Prediction:");
+          var t = document.createTextNode("Consensus prediction:");
           if (response['sa_prediction']['prediction'] == false){
             var value = document.createTextNode("non-mutagenic");
           };
@@ -74,9 +79,9 @@
           h3.appendChild(t);
           p.appendChild(h3);
           p.appendChild(value);
-          // confidence
+          // Consensus confidence
           var h4 = document.createElement("h5");
-          var t = document.createTextNode("Confidence:");
+          var t = document.createTextNode("Consensus confidence:");
           var value = document.createTextNode(response['confidence']);
           h4.appendChild(t);
           p.appendChild(h4);
@@ -110,13 +115,6 @@
             var value = document.createTextNode(response['model_name']);
             h.appendChild(value);
             p.appendChild(h);
-          } else if (val == "type") {
-            var t = document.createTextNode("Type: ");
-            var value = document.createTextNode(response['model_type']);
-            h.appendChild(t);
-            p.appendChild(h);
-            p.appendChild(value);
-            h.style.display = "inline";
           } else if (val == "db_hit" && response['db_hit'] != false && response['sa_prediction'] == false) {
             var value = document.createTextNode(response['db_hit']);
             p.appendChild(value);
diff --git a/views/predict.haml b/views/predict.haml
index eb9047b..6b1c462 100644
--- a/views/predict.haml
+++ b/views/predict.haml
@@ -130,7 +130,7 @@
       %a.btn.glyphicon.glyphicon-info-sign{:href=>"javascript:void(0)", :title=>"File format", :tabindex=>"0", data: {trigger:"focus", toggle:"popover", placement:"auto", html:"true", content:"One column with compounds and keyword SMILES or InChI in the first row."}}
       %br
       %span.btn.btn-default.btn-file
-        %input{:type=>"file", :name=> "fileselect", :id=>"fileselect", :accept=>"text/csv"}
+        %input{:type=>"file", :name=> "fileselect", :id=>"fileselect", :autocomplete=>"off", :accept=>"text/csv"}
 
   %fieldset#middle.well
     %h2 2. Select one or more endpoints
diff --git a/views/prediction.haml b/views/prediction.haml
index b5a7e82..872ee1e 100644
--- a/views/prediction.haml
+++ b/views/prediction.haml
@@ -38,39 +38,34 @@
                 - if sa_prediction
                   - hash = sa_prediction[:prediction]
                   - confidence = sa_prediction[:confidence]
-                  %p
-                  %b Structural alerts:
-                  %p
                   / check for database hit
                   - if prediction[:info] =~ /\b(identical)\b/i
                     - @dbhit[i] = true
-                    / show message about dbhit and measurements
                     %p
                       :plain
                         This compound was part of the training dataset. <i>All</i> information </br>
                         from this compound was removed from the training data before the </br>
                         prediction, to obtain unbiased results.
                       %p
-                  %b Prediction:
+                      %b Measured activity:
+                      %br
+                      = prediction[:measurements].join("; ")
+                  %b Consensus prediction:
                   %br
                   =(hash[:prediction] == true ? "mutagenic" : "non-mutagenic")
                   %p
-                  %b Confidence:
+                  %b Consensus confidence:
                   %br
                   =confidence.to_f.signif(3)
                   %p
                   %b Structural alerts for mutagenicity:
                   %br
-                  =hash[:matches].flatten.first
-                  %p
+                  =hash[:matches].blank? ? "none" : hash[:matches].join("; ")
                 / check for prediction
+                %p
                 - if prediction[:neighbors] and !prediction[:value].nil?
                   %b.title= ("Lazar #{@models[i].endpoint.gsub('_', ' ').downcase} (#{@models[i].species}):" if sa_prediction)
                   %p
-                  / show model type (classification|regression)
-                  %b Type:
-                  = type
-                  %p 
                   / check for database hit
                   - if prediction[:info] =~ /\b(identical)\b/i
                     - @dbhit[i] = true
@@ -81,14 +76,14 @@
                           This compound was part of the training dataset. <i>All</i> information </br>
                           from this compound was removed from the training data before the </br>
                           prediction, to obtain unbiased results.
-                        %p
+                      %p
                         %b Measured activity:
                         %br
                         - if prediction[:measurements].is_a?(Array)
                           = (type == "Regression") ? prediction[:measurements].collect{|value| "#{value.delog10.signif(3)} (#{unit})</br>#{@compound.mmol_to_mg(value.delog10).signif(3)} #{unit =~ /mmol\/L/ ? "(mg/L)" : "(mg/kg_bw/day)"}"}.join("</br>") : prediction[:measurements].join(", ")
                         - else
                           = (type == "Regression") ? "#{prediction[:measurements].delog10.signif(3)} (#{unit})</br>#{@compound.mmol_to_mg(prediction[:measurements].delog10).signif(3)} #{(unit =~ /\b(mmol\/L)\b/) ? "(mg/L)" : "(mg/kg_bw/day)"}" : prediction[:measurements]
-                    
+                  
                   - else
                     - @dbhit[i] = false
                   
@@ -116,16 +111,23 @@
                           %br
                           = "#{prediction[:probabilities].keys[1]}: #{prediction[:probabilities].values[1].signif(3)}"
                   
+                    %p
+                    - if !prediction[:warnings].blank?
+                      %b Warnings:
+                      %br
+                      =prediction[:warnings].join("</br>")
+
                 - else
                   %p
                   - if !prediction[:info].blank?
-                    %b Info:
-                    %br
-                    %p=prediction[:info].sub(/\'.*\'/,"").sub(/,/, ",<br>")
+                    :plain
+                      This compound was part of the training dataset. <i>All</i> information </br>
+                      from this compound was removed from the training data before the </br>
+                      prediction, to obtain unbiased results.
                   - if !prediction[:warnings].blank?
                     %b Warnings:
-                    - prediction[:warnings].uniq.each do |warning|
-                      %p=warning.sub(/,/, ",<br>")
+                    %br
+                    =prediction[:warnings].join("</br>")
 
           / show Cramer rules if checked
           - if @toxtree == true
@@ -143,5 +145,3 @@
   / always show the neighbors table, message is given there. Except only Cramer is selected.
   - unless @predictions.blank?
     = haml :neighbors, :layout => false
-    
-
-- 
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