Pheromones WIP

Editor/ClusterEditor.cs

@@ -81,6 +81,7 @@ namespace NanoBrain {
                 // So we create a temporary instance
                 //this.currentCluster = new(prefab);
                 this.currentCluster = prefab.cluster;
+                this.currentCluster.Refresh();
             }
 
             public void SetGraph(GameObject gameObject, VisualElement inspectorContainer) {
@@ -227,10 +228,8 @@ namespace NanoBrain {
 
                 bool connecting = GUILayout.Button("Add Output Neuron");
                 if (connecting) {
-                    Nucleus newOutput = new Neuron(this.prefab.cluster, "New Output");
+                    Nucleus newOutput = new Neuron(this.currentCluster, "New Output");
-                    // Regenerate the temporary clsuter instance
+                    this.currentCluster.Refresh();
-                    // See also the constructor
-                    this.currentCluster = new(this.prefab);
                     this.currentNucleus = newOutput;
                     this.selectedOutput = this.currentNucleus;
                 }
@@ -358,8 +357,6 @@ namespace NanoBrain {
                                     int selectedIndex = System.Array.IndexOf(options, synapse.neuron.name);
                                     int newIndex = EditorGUILayout.Popup(selectedIndex, options);
                                     if (newIndex != selectedIndex) {
-                                        // Nucleus selectedNucleus = synapse.neuron.parent.clusterNuclei[newIndex];
-                                        // Neuron newNeuron = selectedNucleus as Neuron;
                                         Neuron newNeuron = synapse.neuron.parent.prefab.cluster.nuclei[newIndex] as Neuron;
                                         ChangeSynapse(synapse, newNeuron);
                                     }
@@ -523,22 +520,6 @@ namespace NanoBrain {
                 return connecting;
             }
 
-            // protected virtual void DisconnectNucleus(Neuron nucleus) {
-            //     if (this.currentNucleus.parent.prefab == null)
-            //         return;
-            //     Neuron currentNeuron = this.currentNucleus as Neuron;
-            //     string[] names = currentNeuron.synapses.Select(synapse => synapse.neuron.name).ToArray();
-            //     int selectedIndex = -1;
-            //     selectedIndex = EditorGUILayout.Popup("Disconnect from", selectedIndex, names);
-            //     if (selectedIndex >= 0 && selectedIndex < this.currentNucleus.parent.prefab.cluster.nuclei.Count) {
-            //         Synapse synapse = currentNeuron.synapses[selectedIndex];
-            //         synapse.neuron.RemoveReceiver(this.currentNucleus);
-
-            //         // synapse = currentNeuron.synapses[selectedIndex];
-            //         // synapse.neuron.RemoveReceiver(this.currentPrefabNucleus);
-            //     }
-            // }
-
             protected virtual void DeleteNucleus(Nucleus nucleus) {
                 if (nucleus == null)
                     return;

Runtime/Scripts/Core/Cluster.cs

@@ -766,6 +766,14 @@ namespace NanoBrain {
             }
         }
 
+        public Neuron GetNeuron(string neuronName) {
+            foreach (Nucleus nucleus in this.nuclei) {
+                if (nucleus is Neuron neuron && neuron.name == neuronName)
+                    return neuron;
+            }
+            return null;
+        }
+
         public bool DeleteNucleus(Nucleus nucleus) {
             if (this.nuclei.Contains(nucleus) == false) {
                 // Try to find the nucleus by name
@@ -875,12 +883,12 @@ namespace NanoBrain {
 
             List<Nucleus> computeOrder = this.computeOrders[startNucleus];
             //if (startNucleus.trace)
-            Debug.Log($"Update from {startNucleus.name}");
+            // Debug.Log($"Update from {startNucleus.name}");
             foreach (Nucleus nucleus in computeOrder) {
                 if (nucleus is not Cluster) {
                     nucleus.UpdateStateIsolated();
                     //if (startNucleus.trace && nucleus is Neuron neuron)
-                    Debug.Log($"   {nucleus.name}");
+                    // Debug.Log($"   {nucleus.name}");
                     if (nucleus is Neuron neuron) {
                         foreach (Nucleus receiver in neuron.receivers) {
                             if (receiver.parent != this) {
@@ -910,6 +918,12 @@ namespace NanoBrain {
         #endregion Update
 
         public void Refresh() {
+            // This should not be needed, but somehow somewhere the parent is changed...
+            foreach (Nucleus nucleus in this.nuclei) {
+                if (nucleus is not Neuron neuron)
+                    continue;
+                neuron.parent = this;
+            }
             RefreshOutputs();
             RefreshComputeOrders();
         }

Runtime/Scripts/Core/Neuron.cs

@@ -104,6 +104,7 @@ namespace NanoBrain {
         /// <param name="inputValue"></param>
         public virtual void SetBias(Vector3 inputValue) {
             this.bias = inputValue;
+            this.lastUpdate = Time.time;
             this.parent?.UpdateFromNucleus(this);
         }
 
@@ -277,7 +278,7 @@ namespace NanoBrain {
 #endif
         public bool isFiring {
             get {
-                SleepCheck();
+                //SleepCheck();
                 return this.outputMagnitude > 0.5f;
             }
         }
@@ -384,13 +385,15 @@ namespace NanoBrain {
             var result = Combinator();
             this.outputValue = Activator(result);
             this.lastUpdate = Time.time;
+            // Debug.Log($"Update Neuron {this.name}");
         }
 
         protected void CheckSleepingSynapses() {
             foreach (Synapse synapse in this.synapses) {
-                if (synapse.isSleeping) {
+                synapse.neuron.SleepCheck();
-                    synapse.neuron.outputValue = Vector3.zero;
+                // if (synapse.isSleeping) {
-                }
+                //     synapse.neuron.outputValue = Vector3.zero;
+                // }
             }
         }