X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=code_ruby%2Flib%2Fmaasha%2Fseq%2Fdigest.rb;h=404faec85259c5e3aa6c771e8528ad1547d3609e;hb=a5a08a965a1b964808eaa51743c7a2629cb46adb;hp=835e8c0a115a68054a56ef40ba47a3ad82342cfc;hpb=37a8910b7465c8e6aeb2c8211f083f0a40ea2380;p=biopieces.git

diff --git a/code_ruby/lib/maasha/seq/digest.rb b/code_ruby/lib/maasha/seq/digest.rb
index 835e8c0..404faec 100644
--- a/code_ruby/lib/maasha/seq/digest.rb
+++ b/code_ruby/lib/maasha/seq/digest.rb
@@ -36,7 +36,7 @@ module Digest
       pos = $`.length + cut_pos 
 
       if pos >= 0 and pos < self.length - 2
-        subseq = self.subseq(offset, pos - offset)
+        subseq = self[offset .. pos - 1]
         subseq.seq_name = "#{self.seq_name}[#{offset}-#{pos - offset - 1}]"
 
         block_given? ? (yield subseq) : (results << subseq)
@@ -49,7 +49,7 @@ module Digest
       offset = 0
     end
 
-    subseq = self.subseq(offset)
+    subseq = self[offset .. -1]
     subseq.seq_name = "#{self.seq_name}[#{offset}-#{self.length - 1}]"
 
     block_given? ? (yield subseq) : (results << subseq)
@@ -85,7 +85,7 @@ module Digest
     new_pattern = ""
 
     pattern.upcase.each_char do |char|
-      if ambiguity.has_key? char
+      if ambiguity[char]
         new_pattern << ambiguity[char]
       else
         raise DigestError, "Could not disambiguate residue: #{char}"