rename ExtendedConservedPath for the old fltk code

[mussa.git] / gui / SeqView.cpp

diff --git a/gui/SeqView.cpp b/gui/SeqView.cpp
index 419d21e2d887ae70b9709a14a8c2bf56c81de1d2..66a6714d27687eab603d9b2bdff1500e5b3ca7fd 100644 (file)
--- a/gui/SeqView.cpp
+++ b/gui/SeqView.cpp
@@ -20,7 +20,7 @@ using namespace std;
 void
 SeqView::setup(string name, int sq_num, 
                vector<Sequence> *some_seqs,
-               list<ExtendedConservedPath > some_paths, vector<int> some_lens,
+               list<ConservedPath > some_paths, vector<int> some_lens,
                vector<fltk_motif> *some_motifs)
 {
   int seq_i;
@@ -45,7 +45,7 @@ SeqView::setup(string name, int sq_num,
   for(seq_i = 0; seq_i < seq_num; ++seq_i)
     raw_sequence.push_back( (*S)[seq_i].get_seq() );
 
-  for(list<ExtendedConservedPath >::iterator pathz_i = P.begin(); 
+  for(list<ConservedPath >::iterator pathz_i = P.begin(); 
       pathz_i != P.end(); 
       ++pathz_i)
   {
@@ -233,13 +233,13 @@ SeqView::draw_match_lines(double ch_width)
 
 
   align_counter = 0;
-  for(list<ExtendedConservedPath >::iterator pathz_i = P.begin(); 
+  for(list<ConservedPath >::iterator pathz_i = P.begin(); 
       pathz_i != P.end(); 
       ++pathz_i)
   {
     if (show_aligns[align_counter])
     {
-      ExtendedConservedPath& a_path = *pathz_i;
+      ConservedPath& a_path = *pathz_i;
       window_length = a_path.window_size;
       // determine which parts of the path are RC relative to first species
       rc_list = a_path.reverseComplimented();
@@ -393,7 +393,7 @@ SeqView::toggle_align(int align_num)
 void
 SeqView::align_offsets(int align_num)
 {
-  list<ExtendedConservedPath >::iterator pathz_i;
+  list<ConservedPath >::iterator pathz_i;
   int i;
   int window_length;