lib/bio/shell/plugin/entry.rb in bio-1.4.1 vs lib/bio/shell/plugin/entry.rb in bio-1.4.2

@@ -60,11 +60,11 @@
   #   * IO          -- IO object (first entry only)
   #   * "filename"  -- local file (first entry only)
   #   * "db:entry"  -- local BioFlat, OBDA, EMBOSS, KEGG API
   def getent(arg)
     entry = ""
-    db, entry_id = arg.to_s.strip.split(/:/)
+    db, entry_id = arg.to_s.strip.split(/\:/, 2)
 
     # local file
     if arg.respond_to?(:gets) or File.exists?(arg)
       puts "Retrieving entry from file (#{arg})"
       entry = flatfile(arg)
@@ -79,11 +79,15 @@
       puts "Retrieving entry from OBDA (#{arg})"
       entry = obdaentry(db, entry_id)
 
     else
       # EMBOSS USA in ~/.embossrc
-      str = entret(arg)
-      if $?.exitstatus == 0 and str.length != 0
+      begin
+        str = entret(arg)
+      rescue SystemCallError
+        str = ''
+      end
+      if $? and $?.exitstatus == 0 and str.length != 0
         puts "Retrieving entry from EMBOSS (#{arg})"
         entry = str
 
       # via Internet
       else