Highlight metadata package in genomes

seq-code · Jan 9, 2024 · 41d4394 · 41d4394
1 parent 65ac2ea
commit 41d4394
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Showing 2 changed files with 21 additions and 13 deletions.
diff --git a/app/models/genome.rb b/app/models/genome.rb
@@ -77,7 +77,8 @@ def important_sample_attributes
           env_broad_scale env_local_scale env_medium
           environment_biome environment_feature
         ],
-        other: %i[host ph depth temp temperature rel_to_oxygen]
+        other: %i[host ph depth temp temperature rel_to_oxygen],
+        package: %i[ena_checklist ncbi_submission_package biosamplemodel]
       }
     end
   end

diff --git a/app/views/genomes/_samples.html.erb b/app/views/genomes/_samples.html.erb
@@ -5,7 +5,7 @@
     <%
       attributes_icon = {
         date: 'calendar', location: 'map-marked', toponym: 'map-signs',
-        environment: 'leaf', other: 'binoculars'
+        environment: 'leaf', other: 'binoculars', package: 'cubes'
       }
     %>
     <% attributes_icon.each do |group, icon| %>
@@ -15,23 +15,30 @@
           <% @genome.source_attribute_groups[group].each do |k, v| %>
             <div>
               <b><%= k.to_s.tr('_', ' ').titleize %>:</b>
-              <% case group %>
-              <% when :environment %>
-                <%
+              <%
+                case group
+                when :environment
                   osl4 = 'https://www.ebi.ac.uk/ols4/ontologies/envo/classes/'
                   purl = 'http://purl.obolibrary.org/obo/ENVO_'
-                  envo = osl4 + ERB::Util.u(purl) + '\\1'
-
+                  envo = osl4 + ERB::Util.u(purl)
                   v.map! do |i|
-                    i.gsub(
+                    sanitize(i).gsub(
                       /ENVO:(\d{8})/,
-                      "<a href='#{envo}' target='_blank'>ENVO:\\1</a>"
+                      "<a href='#{envo}\\1' target='_blank'>ENVO:\\1</a>"
                     )
                   end
-                %>
-              <% else %>
-                <% v.map! { |i| sanitize(i) } %>
-              <% end %>
+                when :ena_checklist
+                  ena = 'https://www.ebi.ac.uk/ena/browser/view/'
+                  v.map! do |i|
+                    sanitize(i).gsub(
+                      /(ERC\d{6})/,
+                      "<a href='#{ena}\\1' target='_blank'>\\1</a>"
+                    )
+                  end
+                else
+                  v.map! { |i| sanitize(i) }
+                end
+              %>
               <%= v.join(' • ').html_safe %>
             </div>
           <% end %>