blocks running.

Assets/Prefab/BlockObject.prefab

@@ -484,12 +484,12 @@ MonoBehaviour:
       - m_Target: {fileID: 7667070743931665524}
         m_TargetAssemblyTypeName: BlockObjectClass, Assembly-CSharp
         m_MethodName: SetInhalePeriod
-        m_Mode: 1
+        m_Mode: 4
         m_Arguments:
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           m_ObjectArgumentAssemblyTypeName: UnityEngine.Object, UnityEngine
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@@ -724,12 +724,12 @@ MonoBehaviour:
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         m_MethodName: SetRuntime
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@@ -1589,12 +1589,12 @@ MonoBehaviour:
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           m_ObjectArgumentAssemblyTypeName: UnityEngine.Object, UnityEngine
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Assets/Scenes/Menu.unity

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@@ -1936,6 +2038,99 @@ CanvasRenderer:
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@@ -2571,9 +2766,21 @@ MonoBehaviour:
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         m_CallState: 2
-      - m_Target: {fileID: 1993962873}
-        m_TargetAssemblyTypeName: SceneLoaderClass, Assembly-CSharp
-        m_MethodName: LoadRunScene
+      - m_Target: {fileID: 473153906}
+        m_TargetAssemblyTypeName: UnityEngine.Behaviour, UnityEngine
+        m_MethodName: set_enabled
+        m_Mode: 6
+        m_Arguments:
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+        m_CallState: 2
+      - m_Target: {fileID: 1953068991}
+        m_TargetAssemblyTypeName: AnimateCircle, Assembly-CSharp
+        m_MethodName: MoveToCentre
         m_Mode: 1
         m_Arguments:
           m_ObjectArgument: {fileID: 0}
@@ -2583,6 +2790,18 @@ MonoBehaviour:
           m_StringArgument: 
           m_BoolArgument: 0
         m_CallState: 2
+      - m_Target: {fileID: 1225748238}
+        m_TargetAssemblyTypeName: UnityEngine.Behaviour, UnityEngine
+        m_MethodName: set_enabled
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 --- !u!114 &1388192736
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@@ -3265,6 +3484,10 @@ MonoBehaviour:
   m_EditorClassIdentifier: 
   numCyclesInput: {fileID: 1992066360}
   blockControl: {fileID: 1785070519}
+  centreCircle: {fileID: 1953068988}
+  canvas: {fileID: 473153906}
+  countdownObject: {fileID: 1225748237}
+  runProtocol: 0
 --- !u!4 &1600482175
 Transform:
   m_ObjectHideFlags: 0
@@ -4234,7 +4457,7 @@ MonoBehaviour:
   m_OnEndEdit:
     m_PersistentCalls:
       m_Calls:
-      - m_Target: {fileID: 0}
+      - m_Target: {fileID: 1600482174}
         m_TargetAssemblyTypeName: ProtocolHandler, Assembly-CSharp
         m_MethodName: UpdateNumCycles
         m_Mode: 1
@@ -4320,51 +4543,6 @@ CanvasRenderer:
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   m_GameObject: {fileID: 1992066360}
   m_CullTransparentMesh: 1
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---- !u!4 &1993962874
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+  - {fileID: 533764380}

Assets/Scripts/AnimateCircle.cs

@@ -21,12 +21,18 @@ public class AnimateCircle : MonoBehaviour
     private Vector3 inhaleVelocity = new Vector3(0.0f, 0.0f, 0.0f);
     private Vector3 exhaleVelocity = new Vector3(0.0f, 0.0f, 0.0f);
 
+    private Transform parentTransform;
+    private Vector3 parentCentrePosition = new Vector3(0f, 0f, 0f);
+    private Vector3 parentOffsetPosition;
+
     // Start is called before the first frame update
     void Start()
     {
         is_inhale = true;
         originalScale = this.transform.localScale;
         scaleDiff = finalScale - originalScale;
+        parentTransform = this.GetComponentInParent<Transform>().parent.transform;
+        parentOffsetPosition = parentTransform.position;
 
         StateReset();
         this.enabled = false;
@@ -54,6 +60,16 @@ public class AnimateCircle : MonoBehaviour
         StateReset();
     }
 
+    public void MoveToCentre()
+    {
+        parentTransform.position = parentCentrePosition;
+    }
+
+    public void MoveToOffset()
+    {
+        parentTransform.position = parentOffsetPosition;
+    }
+
     private void OnDisable()
     {
         StateReset();

Assets/Scripts/BlockObjectClass.cs

@@ -10,9 +10,9 @@ public class BlockObjectClass : MonoBehaviour
     public float ExhalePeriod { get; private set; }
     public float MaxRuntime { get; private set; }
 
-    TMP_InputField inhalePeriodInput;
-    TMP_InputField exhalePeriodInput;
-    TMP_InputField runtimeInput;
+    TMP_InputField inhalePeriodTextInput;
+    TMP_InputField exhalePeriodTextInput;
+    TMP_InputField runtimeTextInput;
 
     void Awake()
     {
@@ -26,17 +26,17 @@ public class BlockObjectClass : MonoBehaviour
             name = go.name;
             if (name == "Inhale")
             {
-                inhalePeriodInput = go.GetComponent<TMP_InputField>();
+                inhalePeriodTextInput = go.GetComponent<TMP_InputField>();
                 SetInhalePeriod();
             }
             else if (name == "Exhale")
             {
-                exhalePeriodInput = go.GetComponent<TMP_InputField>();
+                exhalePeriodTextInput = go.GetComponent<TMP_InputField>();
                 SetExhalePeriod();
             }
             else if (name == "Runtime")
             {
-                runtimeInput = go.GetComponent<TMP_InputField>();
+                runtimeTextInput = go.GetComponent<TMP_InputField>();
                 SetRuntime();
             }
         }
@@ -54,16 +54,38 @@ public class BlockObjectClass : MonoBehaviour
         
     }
 
-    public void SetInhalePeriod()
+    public void SetInhalePeriod(float inhalePeriod=-1f)
     {
-        InhalePeriod = (float)Convert.ToDouble(inhalePeriodInput.text);
+        if (inhalePeriod == -1)
+        {
+            InhalePeriod = (float)Convert.ToDouble(inhalePeriodTextInput.text);
+        }
+        else
+        {
+            InhalePeriod = inhalePeriod;
+        }
+        
     }
-    public void SetExhalePeriod()
+    public void SetExhalePeriod(float exhalePeriod=-1f)
     {
-        ExhalePeriod = (float)Convert.ToDouble(exhalePeriodInput.text);
+        if (exhalePeriod == -1)
+        {
+            ExhalePeriod = (float)Convert.ToDouble(exhalePeriodTextInput.text);
+        }
+        else
+        {
+            ExhalePeriod = exhalePeriod;
+        }
     }
-    public void SetRuntime()
+    public void SetRuntime(float runtimeInput=-1f)
     {
-        MaxRuntime = (float)Convert.ToDouble(runtimeInput.text)*60;
+        if (runtimeInput == -1)
+        {
+            MaxRuntime = (float)Convert.ToDouble(runtimeTextInput.text) * 60;
+        }
+        else
+        {
+            MaxRuntime = runtimeInput;
+        }
     }
 }

Assets/Scripts/DisplayRuntimeValue.cs

@@ -25,7 +25,7 @@ public class DisplayRuntimeValue : MonoBehaviour
     public void DisplayRuntime()
     {
         TMP_Text displayText = this.GetComponent<TMP_Text>();
-        runtimeMinutes = protocolHandler.TotalRuntime / 60;
+        runtimeMinutes = protocolHandler.TotalRuntime;
         string text = runtimeMinutes.ToString();
         displayText.SetText(text);
     }

Assets/Scripts/ProtocolHandler.cs

@@ -9,12 +9,19 @@ public class ProtocolHandler : MonoBehaviour
     public static ProtocolHandler Instance;
     public GameObject numCyclesInput;
     public GameObject blockControl;
+    public GameObject centreCircle;
+    public Canvas canvas;
+    public GameObject countdownObject;
     public float TotalRuntime { get; private set; }
+    public bool runProtocol = false; // not running
 
     BlockHandler blockHandler;
     List<GameObject> blockStack = new List<GameObject>();
+    AnimateCircle animateCircle;
+    RunCountdown runCountdown;
     int nCycles = 1;
     int currentBlockIndex = 0;
+    int previousBlockIndex = -1;
     int currentCycle = 0;
 
     static float timeBetweenBlocks = 3f; // seconds, not implemented
@@ -33,21 +40,50 @@ public class ProtocolHandler : MonoBehaviour
     // Start is called before the first frame update
     void Start()
     {
-        
+        blockHandler = blockControl.GetComponent<BlockHandler>();
+        animateCircle = centreCircle.GetComponent<AnimateCircle>();
+        runCountdown = countdownObject.GetComponent<RunCountdown>();
     }
 
     // Update is called once per frame
     void Update()
     {
 
+        Debug.Log("is protocol running " + runProtocol);
+        Debug.Log("is circle animating " + animateCircle.enabled);
+        if (runProtocol && !animateCircle.enabled)
+        {
+            // if it's time to run and animation not running, then set to run and iterate
+            RunBlock(currentBlockIndex);
+            previousBlockIndex = currentBlockIndex;
+            currentBlockIndex++;
+            Debug.Log("Finished " + currentBlockIndex + " / " + blockStack.Count.ToString());
+            runProtocol = false;
+        }
+        else if (previousBlockIndex >= 0 && !animateCircle.enabled && 
+            currentBlockIndex < blockStack.Count)
+        {
+            runCountdown.enabled = true;
+        }
+
+        if (currentBlockIndex == blockStack.Count && !animateCircle.enabled)
+        {
+            // export data
+            currentBlockIndex = 0;
+            previousBlockIndex = -1;
+            currentCycle = 0;
+            runProtocol = false;
+            animateCircle.enabled = false;
+            animateCircle.MoveToOffset();
+            canvas.enabled = true;
+        }
     }
 
     // Update runtime by adding each block runtime, adding 3s for each block,
     // and multiplying by cycles
     public void UpdateTotalRuntime()
     {
-        blockHandler = blockControl.GetComponent<BlockHandler>();
-        TotalRuntime = blockHandler.blockStackRuntime;
+        TotalRuntime = blockHandler.blockStackRuntime / 60;
         TotalRuntime *= nCycles;
     }
 
@@ -64,7 +100,6 @@ public class ProtocolHandler : MonoBehaviour
         foreach (var block in blockStack)
         {
             BlockObjectClass boc = block.GetComponent<BlockObjectClass>();
-            Debug.Log("boc " + i + " inhale: " + boc.InhalePeriod);
             i++;
         }
     }
@@ -79,9 +114,12 @@ public class ProtocolHandler : MonoBehaviour
             i++;
         }
     }
-}
 
-public class ProtocolVariables
-{
-    List<BlockObjectClass>
+    void RunBlock(int blockIndex)
+    {
+        blockHandler.SetRunningBlockIndex(blockIndex);
+        blockHandler.SetRunningBlock();
+        blockHandler.UpdateRunningBlock();
+        animateCircle.ResetAndRun();
+    }
 }
\ No newline at end of file

Assets/Scripts/RunCountdown.cs

+using System.Collections;
+using System.Collections.Generic;
+using UnityEngine;
+using UnityEngine.UI;
+
+public class RunCountdown : MonoBehaviour
+{
+    public GameObject protocolHandlerObject;
+
+    ProtocolHandler protocolHandler;
+    int maxCountdownValue = 3;
+    int countdown = 3;
+    float timer = 0;
+    Text displayText;
+
+    private void Awake()
+    {
+        protocolHandler = protocolHandlerObject.GetComponent<ProtocolHandler>();
+        displayText = GetComponent<Text>();
+        displayText.enabled = false;
+        enabled = false;
+    }
+
+    // Start is called before the first frame update
+    void Start()
+    {
+        displayText.fontSize = 32;
+        displayText.color = Color.red;
+    }
+
+    // Update is called once per frame
+    void Update()
+    {
+        timer += Time.deltaTime;
+        if (timer >= 1)
+        {
+            countdown--;
+            timer = 0;
+        }
+
+        if (countdown <= 0)
+        {
+            protocolHandler.runProtocol = true;
+            displayText.enabled = false;
+            enabled = false;
+        }
+        displayText.text = countdown.ToString();
+    }
+
+    private void OnDisable()
+    {
+        timer = 0;
+        countdown = maxCountdownValue;
+    }
+
+    private void OnEnable()
+    {
+        displayText.enabled = true;
+    }
+}

Assets/Scripts/RunCountdown.cs.meta

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