Use ncbi-blast-dbs to download swissprot db

wurmlab · Dec 28, 2020 · 35787b9 · 35787b9
1 parent e47acf9
commit 35787b9
Showing 1 changed file with 2 additions and 6 deletions.
diff --git a/Rakefile b/Rakefile
@@ -218,12 +218,8 @@ namespace :package do
 
       mkdir 'blast_db'
       cd 'blast_db' do
-        sh 'update_blastdb.pl --decompress swissprot' do |_, e|
-          abort 'update_blastdb.pl failed to run.' if e.exitstatus == 2
-          # This script returns 0 on successful operations that result in no
-          # downloads, 1 on successful operations that downloaded files,
-          # and 2 on errors.
-        end
+        sh 'bundle exec genevalidator ncbi-blast-dbs swissprot'
+        sh 'rm swissprot.tar.*'
       end
     end
   end