From 894ed0e7c8a35c9503f2fdb4f9923accde06ef0e Mon Sep 17 00:00:00 2001
From: gebele <gebele@in-silico.ch>
Date: Fri, 29 Jun 2018 12:41:41 +0000
Subject: updated file format instructions

---
 application.rb     |  4 +++
 views/help.haml    | 94 ++++++++++++++++++++++++++++++++++++++++++++++++++++++
 views/predict.haml |  2 +-
 views/style.scss   | 14 ++++++++
 4 files changed, 113 insertions(+), 1 deletion(-)
 create mode 100644 views/help.haml

diff --git a/application.rb b/application.rb
index ecdc603..ee7837f 100644
--- a/application.rb
+++ b/application.rb
@@ -530,6 +530,10 @@ post '/predict/?' do
   end
 end
 
+get '/help' do
+  haml :help
+end
+
 get '/style.css' do
   headers 'Content-Type' => 'text/css; charset=utf-8'
   scss :style
diff --git a/views/help.haml b/views/help.haml
new file mode 100644
index 0000000..0f0134a
--- /dev/null
+++ b/views/help.haml
@@ -0,0 +1,94 @@
+%div.well
+  %h3 How to use batch prediction
+
+  %p
+    You have two options on how your comma sperated spreadsheet (
+    %strong CSV
+    ) needs to be structured to work with the batch prediction.
+    %br
+    One with only a list of compounds you want to predict and one where you can keep any kind of ID 
+    for each compound for a better tracking of the results.
+    %br
+    Following examples for each option:
+
+  %br
+  %p
+    %div.row
+      %div.col-md-6
+        %strong Option 1:
+        %br
+        A spreadsheet with only 
+        %strong one 
+        column. 
+        %strong Important is the header 
+        containing the 
+        %strong type 
+        of the compounds. 
+        %strong SMILES 
+        or 
+        %strong InChI 
+        are accepted terms followed by corresponding compounds.
+      %div.col-md-6
+        %table.help
+          %tr.row
+            %th.col-md-12
+              SMILES
+          %tr.row
+            %td.col-md-12
+              C1ccccc1NN
+          %tr.row
+            %td.col-md-12
+              Cc1ccc(cc1\N=C=O)/N=C=O
+          %tr.row
+            %td.col-md-12
+              OC(=O)c1ccc(cc1)C(=O)O
+          %tr.row
+            %td.col-md-12
+              ="..."
+  %br
+  %p
+    %div.row
+      %div.col-md-6
+        %strong Option 2:
+        %br
+        A spreadsheet with 
+        %strong two 
+        columns where the 
+        %strong first column must contain a header ID 
+        followed by any kind of ID you want to keep for the results and a 
+        %strong second column with a header SMILES or InChI 
+        followed by corresponding compounds.
+      %div.col-md-6
+        %table.help
+          %tr.row
+            %th.col-md-4
+              ID
+            %th.col-md-8
+              SMILES
+          %tr.row
+            %td.col-md-4
+              2735
+            %td.col-md-8
+              C1ccccc1NN
+          %tr.row
+            %td.col-md-4
+              A2
+            %td.col-md-8
+              O=C(OCCCC)C1=CC=CC=C1C(OCCCC)=O
+          %tr.row
+            %td.col-md-4
+              82 B-6 304663
+            %td.col-md-8
+              CC(C)(C)C1=CC2(C=C(C1=O)C(C)(C)C)CCC(=O)O2
+          %tr.row
+            %td.col-md-4
+              ="..."
+            %td.col-md-8
+              ="..."
+  %br
+  %p
+    %strong Uploaded CSV files will be stored until you delete them. 
+    %strong You can repeat the prediction whenever you select a file in the list of uploads.
+    %br
+    %strong Please note that a new file uploaded with a same name from the list of existing files 
+    %strong will not overwrite the existing file and instead the existing file will be used !
diff --git a/views/predict.haml b/views/predict.haml
index 054bfa2..d638451 100644
--- a/views/predict.haml
+++ b/views/predict.haml
@@ -143,10 +143,10 @@
           %p
           %label{:for=>"fileselect"}
             or upload a CSV file for batch predictions
-          %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:"First column must contain a header with \"SMILES\" or \"InChI\" and the compounds. Also note that a file with the same name of a file that already exists won't be processed."}}
           %br
           %span.btn.btn-default.btn-file
             %input{:type=>"file", :name=> "fileselect", :id=>"fileselect", :autocomplete=>"off", :accept=>"text/csv"}
+          %a.btn.btn-warning{:href => to("/help"), :rel => "external", :style=>"margin-left: 1em;"} Help
       %div.col-md-6
         - if !@existing_datasets.blank?
           %label{:for=>"storage"} or select an uploaded CSV file
diff --git a/views/style.scss b/views/style.scss
index fc6f8f2..f908812 100644
--- a/views/style.scss
+++ b/views/style.scss
@@ -120,3 +120,17 @@ tr.hide-top > td {
     overflow-y: auto;
     overflow-x: auto;
 }
+.help table, .help th, .help td {
+  background-color: white;
+  border: 1px solid black;
+  border-bottom: none;
+  width: 100%;
+}
+.help th, .help td {
+  padding: 10px;
+  text-align: left;
+}
+.storage-list {
+  background-color: #fff;
+  padding: 1em;
+}
-- 
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