qui/MussaAlignedWindow.hpp

   1 #ifndef MUSSA_ALIGNED_WINDOW_H
   2 #define MUSSA_ALIGNED_WINDOW_H
   3
   4 #include <set>
   5
   6 #include <QMainWindow>
   7 #include <QMenu>
   8 #include "alg/mussa.hpp"
   9 #include "qui/IntAction.hpp"
  10 #include "qui/seqbrowser/SequenceBrowserWidget.hpp"
  11
  12 //! Show sequence alignments
  13 class MussaAlignedWindow : public QMainWindow
  14 {
  15   Q_OBJECT
  16
  17 public:
  18   //! construct an aligned window for an analysis and selected paths
  19   MussaAlignedWindow(Mussa&, const std::set<int>&, QWidget *parent=0);
  20
  21 public slots:
  22   //! use selected_paths[pathid] to set the starting position of our sequence
  23   void setAlignment(size_t pathid);
  24   //! toggle whether or not to show the aligned basepairs of a window
  25   void toggleViewAlignment(size_t alignment_index);
  26
  27 protected:
  28   void setSelectedPaths(Mussa &m, const std::set<int>& sel_paths);
  29   //! set menus (must be called after setSelectedPaths)
  30   void setupMenus();
  31   void computeMatchLines();
  32
  33   Mussa& analysis;
  34   //std::vector<Sequence> sequences;
  35   //const std::set<int>& selected_paths;
  36   std::vector<ExtendedConservedPath> selected_paths;
  37   std::vector<bool> view_paths;
  38   SequenceBrowserWidget browser;
  39   QMenu pick_align_menu;
  40   QMenu view_align_menu;
  41   std::vector <IntAction *> pick_actions;
  42   std::vector <IntAction *> view_actions;
  43 };
  44 #endif