Move alphabet type into SeqString

[mussa.git] / alg / motif_parser.cpp

diff --git a/alg/motif_parser.cpp b/alg/motif_parser.cpp
index d05f15bbd55410ec1b2e76c94ce5114b6cb85a68..c59c2873e160d697ab46d2b08510d1d985f905cf 100644 (file)
--- a/alg/motif_parser.cpp
+++ b/alg/motif_parser.cpp
@@ -1,6 +1,7 @@
 #include "mussa_exceptions.hpp"
-#include "alg/alphabet.hpp"
-#include "alg/motif_parser.hpp"
+#include "alphabet.hpp"
+#include "motif_parser.hpp"
+#include "seq.hpp"
 
 #include <boost/spirit/core.hpp>
 #include <boost/spirit/actor/push_back_actor.hpp>
@@ -56,7 +57,7 @@ void motif_parser::push_motif::operator()(
   Iterator end) const
 {
   float red, green, blue, alpha;
-  Sequence seq(parsed->sequence, Sequence::nucleic_alphabet);
+  Sequence seq(parsed->sequence, nucleic_alphabet);
   seq.set_fasta_header(parsed->name);
   
   alpha = 1.0;