Rake task to update new fields for existing batches

lib/tasks/batches_labels.rake

@@ -0,0 +1,19 @@
+require 'csv'
+
+namespace :batches_labels do
+  desc "Update batches label fields"
+  task :import, [:csv_file] => :environment do |task, args|
+    path = args[:csv_file] || abort("Usage: $> rake batches_labels:import[path/to/file.csv] RAILS_ENV={env}")
+
+    CSV.foreach(path, headers: true) do |row|
+      batch = Batch.find_by(batch_number: row['batch_number'])
+      if batch
+        batch.reference_gene = row['reference_gene']
+        batch.target_organism_taxonomy_id = row['target_organism_taxonomy_id']
+        batch.pango_lineage = row['pango_lineage']
+        batch.who_label = row['who_label']
+        batch.save
+      end
+    end
+  end
+end

public/batches_label_data.csv

@@ -0,0 +1,53 @@
+batch_number,reference_gene,target_organism_name,target_organism_taxonomy_id,pango_lineage,who_label
+WA1-HTI-001,N,SARS-CoV-2,2697049,A,
+WA1-UVI-001,N,SARS-CoV-2,2697049,A,
+B.1.1.7-HTI-001,N,SARS-CoV-2,2697049,B.1.1.7,Alpha
+B.1.1.7-UVI-001,N,SARS-CoV-2,2697049,B.1.1.7,Alpha
+B.1.351-HTI-001,N,SARS-CoV-2,2697049,B.1.351,Beta
+B.1.351-UVI-001,N,SARS-CoV-2,2697049,B.1.351,Beta
+P1.HTI-001,N,SARS-CoV-2,2697049,P.1,Gamma
+P1.UVI-001,N,SARS-CoV-2,2697049,P.1,Gamma
+B.1.617.2-HTI-001,N,SARS-CoV-2,2697049,B.1.617.2,Delta
+B.1.617.2-UVI-001,N,SARS-CoV-2,2697049,B.1.617.2,Delta
+WA1-HTI-002,N,SARS-CoV-2,2697049,A,
+WA1-UVI-002,N,SARS-CoV-2,2697049,A,
+WA1-UVI-003,N,SARS-CoV-2,2697049,A,
+WA1-UVI-006,N,SARS-CoV-2,2697049,A,
+B.1.1.7-HTI-002,N,SARS-CoV-2,2697049,B.1.1.7,Alpha
+B.1.1.7-UVI-002,N,SARS-CoV-2,2697049,B.1.1.7,Alpha
+BA.1-HTI-001,N,SARS-CoV-2,2697049,BA.1.20,Omicron
+BA.1-UVI-001,N,SARS-CoV-2,2697049,BA.1.20,Omicron
+B.1.621-HTI-001,N,SARS-CoV-2,2697049,B.1.621,Mu
+B.1.621-UVI-001,N,SARS-CoV-2,2697049,B.1.621,Mu
+BA.2.3-HTI-001,N,SARS-CoV-2,2697049,BA.2.3,Omicron
+BA.2.3-HTI-001,N,SARS-CoV-2,2697049,BA.2.3,Omicron
+BA.1-UVI-002,N,SARS-CoV-2,2697049,BA.1.20,Omicron
+BA.2.12.1-UVI-001,N,SARS-CoV-2,2697049,BA.2.12.1,Omicron
+BA.2.12.1-HTI-001,N,SARS-CoV-2,2697049,BA.2.12.1,Omicron
+BA.4.1-UVI-001,N,SARS-CoV-2,2697049,BA.4.1,Omicron
+BA.4.1-HTI-001,N,SARS-CoV-2,2697049,BA.4.1,Omicron
+BA.5.1-UVI-001,N,SARS-CoV-2,2697049,BA.5.1,Omicron
+BA.5.1-HTI-001,N,SARS-CoV-2,2697049,BA.5.1,Omicron
+BF.7-UVI-001,N,SARS-CoV-2,2697049,BF.7,Omicron
+BF.7-HTI-001,N,SARS-CoV-2,2697049,BF.7,Omicron
+BQ.1-UVI-001,N,SARS-CoV-2,2697049,BQ.1,Omicron
+BQ.1-HTI-001,N,SARS-CoV-2,2697049,BQ.1,Omicron
+B.1.617.2-UVI-002,N,SARS-CoV-2,2697049,B.1.617.2,Delta
+XBB.1.5-HTI-001,N,SARS-CoV-2,2697049,XBB.1.5,Omicron
+XBB.1.5-UVC-001,N,SARS-CoV-2,2697049,XBB.1.5,Omicron
+WA1-UVI-007,N,SARS-CoV-2,2697049,A,
+BA.1.20-UVI-003,N,SARS-CoV-2,2697049,BA.1.20,Omicron
+CoV229E-HTI-001,M,Human coronavirus 229E,11137,,
+CoV229E-UVI-001,M,Human coronavirus 229E,11137,,
+CoVOC43-HTI-001,M,Human coronavirus OC43,31631,,
+CoVOC43-UVI-001,M,Human coronavirus OC43,31631,,
+RSVA-HTI-001,N,RSV A2,11259,,
+RSVA-UVI-001,N,RSV A2,11259,,
+RSVB-HTI-001,N,RSV B,11251,,
+RSVB-UVI-001,N,RSV B,11251,,
+IAVH3N2-HTI-001,M,Influenza A virus H3N2,41857,,
+IAVH3N2-UVI-001,M,Influenza A virus H3N2,41857,,
+IAVH1N1-HTI-001,M,Influenza A virus H1N1,1323429,,
+IAVH1N1-UVI-001,M,Influenza A virus H1N1,1323429,,
+IBV2009-HTI-001,M,Influenza B virus,656883,,
+IBV2009-UVI-001,M,Influenza B virus,656883,,