9 files changed, 70 insertions, 31 deletions
diff --git a/src/engine/Action.cpp b/src/engine/Action.cpp
index 7be3687..bb7adaf 100644
--- a/src/engine/Action.cpp
+++ b/src/engine/Action.cpp
@@ -15,8 +15,8 @@
  * 51 Franklin St, Fifth Floor, Boston, MA  02110-1301, USA
  */
 
-#include <raul/RDFWorld.hpp>
-#include <raul/RDFModel.hpp>
+#include <redlandmm/World.hpp>
+#include <redlandmm/Model.hpp>
 #include "machina/Action.hpp"
 
 namespace Machina {
diff --git a/src/engine/Edge.cpp b/src/engine/Edge.cpp
index 08e45c0..511d38e 100644
--- a/src/engine/Edge.cpp
+++ b/src/engine/Edge.cpp
@@ -15,8 +15,9 @@
  * 51 Franklin St, Fifth Floor, Boston, MA  02110-1301, USA
  */
 
-#include <raul/RDFWorld.hpp>
-#include <raul/RDFModel.hpp>
+#include <raul/Atom.hpp>
+#include <redlandmm/World.hpp>
+#include <redlandmm/Model.hpp>
 #include "machina/Node.hpp"
 #include "machina/Edge.hpp"
 
diff --git a/src/engine/Machine.cpp b/src/engine/Machine.cpp
index 7f668ef..9bb88a5 100644
--- a/src/engine/Machine.cpp
+++ b/src/engine/Machine.cpp
@@ -16,13 +16,14 @@
  */
 
 #include <cstdlib>
-#include <raul/RDFWorld.hpp>
-#include <raul/RDFModel.hpp>
 #include <raul/SharedPtr.hpp>
-#include "machina/Machine.hpp"
-#include "machina/Node.hpp"
+#include <redlandmm/Model.hpp>
+#include <redlandmm/World.hpp>
 #include "machina/Edge.hpp"
+#include "machina/Gene.hpp"
+#include "machina/Machine.hpp"
 #include "machina/MidiAction.hpp"
+#include "machina/Node.hpp"
 
 using namespace std;
 using namespace Raul;
@@ -37,10 +38,40 @@ Machine::Machine()
 {
 }
 
+	
+Machine::Machine(SharedPtr<Gene> genotype)
+	: _is_activated(false)
+	, _is_finished(false)
+	, _time(0)
+	, _genotype(genotype)
+{
+}
+
 
 Machine::~Machine()
 {
 }
+	
+
+SharedPtr<Gene>
+Machine::genotype()
+{
+	if (_genotype)
+		return _genotype;
+
+	_genotype = SharedPtr<Gene>(new Gene(_nodes.size()));
+
+	size_t node_id = 0;
+	for (Nodes::iterator n = _nodes.begin(); n != _nodes.end(); ++n, ++node_id) {
+		size_t edge_id = 0;
+		for (Node::Edges::iterator e = (*n)->outgoing_edges().begin();
+				e != (*n)->outgoing_edges().end(); ++e, ++edge_id) {
+			(*_genotype.get())[node_id].push_back(edge_id);
+		}
+	}
+
+	return _genotype;
+}
 
 
 /** Set the MIDI sink to be used for executing MIDI actions.
diff --git a/src/engine/Node.cpp b/src/engine/Node.cpp
index 77c6d00..5a1ca85 100644
--- a/src/engine/Node.cpp
+++ b/src/engine/Node.cpp
@@ -16,8 +16,9 @@
  */
 
 #include <cassert>
-#include <raul/RDFWorld.hpp>
-#include <raul/RDFModel.hpp>
+#include <raul/Atom.hpp>
+#include <redlandmm/World.hpp>
+#include <redlandmm/Model.hpp>
 #include <machina/Node.hpp>
 #include <machina/Edge.hpp>
 
diff --git a/src/engine/machina/Loader.hpp b/src/engine/machina/Loader.hpp
index 914df24..4a3c123 100644
--- a/src/engine/machina/Loader.hpp
+++ b/src/engine/machina/Loader.hpp
@@ -21,9 +21,9 @@
 #include <glibmm/ustring.h>
 #include <raul/SharedPtr.hpp>
 #include <raul/Path.hpp>
-#include <raul/RDFWorld.hpp>
+#include <redlandmm/World.hpp>
 
-using Raul::Namespaces;
+using Redland::Namespaces;
 
 namespace Machina {
 
diff --git a/src/engine/machina/Machine.hpp b/src/engine/machina/Machine.hpp
index c63537d..76ccef1 100644
--- a/src/engine/machina/Machine.hpp
+++ b/src/engine/machina/Machine.hpp
@@ -21,19 +21,28 @@
 #include <boost/utility.hpp>
 #include <raul/SharedPtr.hpp>
 #include <raul/List.hpp>
-#include <raul/RDFModel.hpp> 
 #include <raul/TimeSlice.hpp>
+#include <redlandmm/Model.hpp> 
 #include "types.hpp"
 #include "LearnRequest.hpp"
 #include "Node.hpp"
 
 namespace Machina {
 
+class Gene;
 
+
+/** A (Finite State) Machine.
+ *
+ * In evolutionary terms, this is the phenotype of Gene.
+ */
 class Machine : public Raul::Stateful, public boost::noncopyable {
 public:
 	Machine();
+	Machine(SharedPtr<Gene> genotype);
 	~Machine();
+	
+	SharedPtr<Gene> genotype();
 
 	// Main context
 	void activate()   { _is_activated = true; }
@@ -74,13 +83,13 @@ private:
 	static const size_t MAX_ACTIVE_NODES = 128;
 	SharedPtr<Node> _active_nodes[MAX_ACTIVE_NODES];
 
-	WeakPtr<Raul::MIDISink> _sink;
 	bool                    _is_activated;
 	bool                    _is_finished;
 	Raul::BeatTime          _time;
-	Nodes                   _nodes;
-
+	SharedPtr<Gene>         _genotype;
 	SharedPtr<LearnRequest> _pending_learn;
+	WeakPtr<Raul::MIDISink> _sink;
+	Nodes                   _nodes;
 };
 
 
diff --git a/src/engine/machina/Makefile.am b/src/engine/machina/Makefile.am
index 4a97f3e..e7c5a56 100644
--- a/src/engine/machina/Makefile.am
+++ b/src/engine/machina/Makefile.am
@@ -1,22 +1,19 @@
 libmachinaincludedir = $(includedir)/machina
 
 libmachinainclude_HEADERS = \
-	types.hpp \
 	Action.hpp \
-	Node.hpp \
-	Edge.hpp \
-	Machine.hpp \
-	Loader.hpp \
-	MidiAction.hpp \
 	ActionFactory.hpp \
 	Driver.hpp \
-	LearnRequest.hpp \
+	Edge.hpp \
 	Engine.hpp \
-	Recorder.hpp \
+	Gene.hpp \
+	JackDriver.hpp \
+	LearnRequest.hpp \
+	Loader.hpp \
+	Machine.hpp \
 	MachineBuilder.hpp \
+	MidiAction.hpp \
+	Node.hpp \
+	Recorder.hpp \
 	SMFDriver.hpp \
-	JackDriver.hpp
-	
-if WITH_JACK	
-	JackDriver.hpp
-endif
+	types.hpp
diff --git a/src/gui/main.cpp b/src/gui/main.cpp
index 680ec68..c232ffd 100644
--- a/src/gui/main.cpp
+++ b/src/gui/main.cpp
@@ -19,7 +19,7 @@
 #include <iostream>
 #include <string>
 #include <libgnomecanvasmm.h>
-#include <raul/RDFWorld.hpp>
+#include <redlandmm/World.hpp>
 #include CONFIG_H_PATH
 #include "machina/Machine.hpp"
 #include "machina/Loader.hpp"
diff --git a/src/midi2machina.cpp b/src/midi2machina.cpp
index b715691..2dba4ff 100644
--- a/src/midi2machina.cpp
+++ b/src/midi2machina.cpp
@@ -17,7 +17,7 @@
 
 #include <iostream>
 #include <signal.h>
-#include <raul/RDFModel.hpp>
+#include <redlandmm/Model.hpp>
 #include "machina/Engine.hpp"
 #include "machina/Machine.hpp"
 #include "machina/Node.hpp"