X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=mussa.git;a=blobdiff_plain;f=alg%2Fseq_span.hpp;h=8d1991360df0bdcebee6e83cab7b926686630a9a;hp=ec94c2717cf8d074933261f7d61863497b663b4d;hb=f1724abab87d2e5b160620b10cb81eabf56aadeb;hpb=7d4fbcb6060a60a8ea25ca1303fcaaaf8574f24a

diff --git a/alg/seq_span.hpp b/alg/seq_span.hpp
index ec94c27..8d19913 100644
--- a/alg/seq_span.hpp
+++ b/alg/seq_span.hpp
@@ -39,7 +39,9 @@ public:
 public:
   SeqSpan(const SeqSpan &);
   SeqSpan(const SeqSpan *);
-  explicit SeqSpan(const std::string &);
+  explicit SeqSpan(const std::string &, 
+               AlphabetRef = reduced_nucleic_alphabet
+           );
   SeqSpan(const SeqSpanRef, size_type start=0, size_type count=npos);
 
   //! assignment
@@ -50,6 +52,7 @@ public:
   friend bool operator==(const SeqSpan&, const SeqSpan&);
   friend bool operator!=(const SeqSpan&, const SeqSpan&);
     
+  const Alphabet& get_alphabet() const { return seq->get_alphabet(); }
   //! \defgroup string_operators
   //! @{
   //! retrive element at specific position