Changed descriptions for most files

Brought in-line to the docstrings

RenderHTML.html

@@ -5,6 +5,8 @@
 		body {
 			margin: 0px;
 			background-color: #383c4a;
+			padding-top: 20px;
+			padding-right: 15px;
 		}
 	</style>
 	<script>

docs/component/ComponentArray.md

@@ -0,0 +1,85 @@
+*| [JavaECS](../../README.md) | [docs](../overview.md) | [component](./dir.md) | ComponentArray[]().md*
+# Component Array
+| **In this Section** |
+|-|
+| [About](#about) |
+| [Implementation](#implementation) |
+| [Constructors](#constructors) |
+| [Methods](#methods) |
+| [Fields](#fields) |
+| [Examples](#examples)|
+| [Notes](#notes)|
+
+## About
+The `ComponentArray` class defines the a common structure that all component data is stored in.
+
+## Implementation
+Associatively maps an entity to the index position of its component data.
+
+See [ComponentArray.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/ComponentArray.java) for the full implementation.
+
+## Constructors
+Default constructor
+``` java
+public ComponentArray(){}
+```
+
+<br>
+
+## Methods
+
+### getData
+``` java
+protected Object getData(int entity);
+```
+Gets the data Object associated with the entity. Returns `null` if the object was not found.
+
+<br>
+
+### insertData
+``` java
+protected boolean insertData(int entity, Object component);
+```
+Inserts the specified `component` and associates it with the entity. If the entity alread has data associated to it, then returns `false`, without adding data.
+
+<br>
+
+### moveData
+``` java
+protected int moveData(int sourceEntity, int destinationEntity);
+```
+'Moves' data from the `sourceEntity` to the `destinationEntity`. Actual implementation copies the data Object associated with the key, and inserts it associated with the new entity.
+Returns `0` if the operation succeeded, `-1` if the object data was null, `-2` if a `NullPointerException` occurred, and `-3` if inserting the new data failed.
+
+<br>
+
+### removeData
+``` java
+protected boolean removeData(int entity);
+```
+Returns `true` if it removed the specified entity's data. If the entity does not exist (data isn't mapped to that entity), then returns `false`.
+
+<br>
+
+## Fields
+### componentArray
+``` java
+private List<Object> componentArray = new ArrayList<>();
+```
+The `List<>` containing the component Object data
+
+<br>
+
+### componentDataEntityMap
+``` java
+private Map<Integer, Integer> componentDataEntityMap = new HashMap<>();
+```
+The mapped list of component data indicies to entities.
+
+<br>
+
+### entityComponentDataMap
+``` java
+private Map<Integer, Integer> entityComponentDataMap = new HashMap<>();
+```
+The mapped list of entities to component data indicies.

docs/component/ComponentManager.md

@@ -0,0 +1,125 @@
+*| [JavaECS](../../README.md) | [docs](../overview.md) | [component](./dir.md) | ComponentManager[]().md*
+# Component Array
+| **In this Section** |
+|-|
+| [About](#about) |
+| [Implementation](#implementation) |
+| [Constructors](#constructors) |
+| [Methods](#methods) |
+| [Fields](#fields) |
+| [Examples](#examples)|
+| [Notes](#notes)|
+
+## About
+The `ComponentArray` class defines the a common structure that all component data is stored in.
+
+## Implementation
+Associatively maps an entity to the index position of its component data.
+
+See [ComponentManager.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/ComponentManager.java) for the full implementation.
+
+## Constructors
+Default constructor
+``` java
+public ComponentManager(){}
+```
+
+<br>
+
+## Methods
+
+### addComponentToEntity
+``` java
+protected void addComponentToEntity(Type componentType, Object componentData, int entity);
+```
+Adds the specified component to the provided entity. Returns `true` if successful, `false` if the component is already associated to the entity.
+
+<br>
+
+### entityDestroyed
+``` java
+public void entityDestroyed(int entity);
+```
+Signals to the `ComponentManager` the entity was destroyed. All component data references should be removed.
+
+<br>
+
+### getComponent
+``` java
+public Object getComponent(Type componentType, int entity);
+```
+Gets the component data associated with the entity, or `null` if it was not found.
+* The result of this operation should be cast back to the specified `Type`
+
+<br>
+
+### getComponentIndex
+``` java
+protected Integer getComponentIndex(Type type);
+```
+Gets the registration index of the provided component type. Returns the index, or `-1` if the component isn't registered.
+
+<br>
+
+### getComponentType
+``` java
+protected Type getComponentType(Integer index);
+```
+Gets the registration type of the provided component index. Returns the index, or `null` if the component isn't registered.
+
+<br>
+
+### moveComponentData
+``` java
+protected void moveComponentData(int sourceEntity, int destinationEntity, Type component);
+```
+Moves a single component data from one entity to another. Returns `true` if the component was moved successfully, else `false`.
+
+<br>
+
+### moveAllComponentData
+``` java
+protected void moveAllComponentData(int sourceEntity, int destinationEntity, BitSet sourceRegistrations);
+```
+Moves all component data from one entity to another.
+
+<br>
+
+### registerComponent
+``` java
+protected boolean registerComponent(Type type);
+```
+Registers the component type. Returns `true` if successful, else `false`.
+
+<br>
+
+### removeComponentFromEntity
+``` java
+public boolean removeComponentFromEntity(Type componentType, int entity);
+```
+Removes the specified component from the entity. Returns `true` if successful, else `false`.
+
+<br>
+
+## Fields
+### componentArrays
+``` java
+private Map<Type, ComponentArray> componentArrays = new HashMap<>();
+```
+Maps the component `Type` to its [ComponentArray](./ComponentArray.md)
+
+<br>
+
+### componentPosIndex
+``` java
+private Map<Type, Integer> componentPosIndex = new HashMap<>();
+```
+The mapped list of component types to the registration indices.
+
+<br>
+
+### indexComponentType
+``` java
+private Map<Integer, Type> indexComponentType = new HashMap<>();
+```
+The mapped list of registration indices to component types.

docs/component/dir.md

@@ -1,4 +1,10 @@
 *| [JavaECS](../README.md) | [docs](../overview.md) | component*
 # Overview
 ### In this folder
-[component.md](./component.md)
+* [Component.md](./Component.md)
+* [componentArray.md](./ComponentArray.md)
+* [componentManager.md](./ComponentManager.md)
+
+### See source files:
+* [componentArray.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/ComponentArray.java)
+* [componentManager.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/ComponentManager.java)

docs/entity/EntityManager.md

@@ -11,7 +11,7 @@
 | [Notes](#notes)|
 
 ## About
-Controls adding and removing entities, and registration and deregistration of components to specific entities.
+Controls adding and removing entities, and registration and unregistration of components to specific entities.
 
 ## Implementation
 Before attempting to use a system, it must be registered.
@@ -22,14 +22,14 @@ See [EntityManager.java](/BrychanD/JaveECS/src/branch/master/javaecs/src/main/ja
 
 ## Constructors
 ``` java
-public EntityManager(){}
+protected EntityManager(){}
 ```
-The default constructor initialises [unusedEntities](#unusedEntities) to a new queue containing `1024` unique integers.
+The default constructor initialises [unusedEntities](#unusedEntities) to a new queue containing [maxSize](#maxSize) (`1024`) unique integers.
 
 <br>
 
 ``` java
-public EntityManager(int maxEntities){}
+protected EntityManager(int maxEntities){}
 ```
 Initialises [unusedEntities](#unusedEntities) to a new queue containing `maxEntities` unique integers.
 
@@ -38,7 +38,7 @@ Initialises [unusedEntities](#unusedEntities) to a new queue containing `maxEnti
 ## Methods
 ### addEntity
 ``` java
-public Integer addEntity();
+protected Integer addEntity();
 ```
 Pops the next available entity index off the queue, and returns its value.
 
@@ -46,17 +46,27 @@ Returns `-1` if there is no remaining unused entities.
 
 <br>
 
+### getMaxSize
+``` java
+protected Integer getMaxSize();
+```
+Gets the current maximum entity count. 
+
+<br>
+
 ### getRegistrations
 ``` java
-public BitSet getRegistrations(int entity);
+protected BitSet getRegistrations(int entity);
 ```
-Returns the `BitSet` of registrations the `entity` has
+Returns the `BitSet` of registrations the `entity` has.
+
+If the call results in an `IndexOutOfBoundsError`, then returns a new BitSet();
 
 <br>
 
 ### registerComponent
 ``` java
-public void registerComponent(int component, int entity);
+protected void registerComponent(int component, int entity);
 ```
 Sets the bit `component` in [entityRegistrations](#entityRegistrations) for `entity` to `true`.
 
@@ -64,7 +74,7 @@ Sets the bit `component` in [entityRegistrations](#entityRegistrations) for `ent
 
 ### removeEntity
 ``` java
-public void removeEntity(int entity);
+protected void removeEntity(int entity);
 ```
 Adds the entity's index back to the unused queue, and clears the assigned registration bits
 #### Note
@@ -72,12 +82,32 @@ Adds the entity's index back to the unused queue, and clears the assigned regist
 
 <br>
 
+### resize
+``` java
+protected boolean resize(int newSize, SystemManager systemManager, ComponentManager componentManager);
+```
+Resizes the currentSize of the entity manager. Moves elements above `newSize` if space is available.
+
+If the current defined elements won't fit, the operation returns `false` and the previous state is maintained.
+
+<br>
+
+### setRegistrations
+``` java
+protected void setRegistrations(int entity, BitSet registrations);
+```
+Sets the entity's registrations to the provided BitSet
+
+<br>
+
 ### unregisterComponent
 ``` java
-public void unregisterComponent(int component, int entity);
+protected void unregisterComponent(int component, int entity);
 ```
 Sets the bit `component` in [entityRegistrations](#entityRegistrations) for `entity` to `false`.
 
+Returns `true` if successful.
+
 <br>
 
 ## Fields
@@ -85,14 +115,22 @@ Sets the bit `component` in [entityRegistrations](#entityRegistrations) for `ent
 ``` java
 List<BitSet> entityRegistrations;
 ```
+The BitSet of registrations for each entity
 
 <br>
 
+### maxSize
+``` java
+private int maxSize = 1024;
+```
+The current maximum entity count.
+
+Default `1024`
+
+
 ### unusedEntities
 ``` java
 Queue<Integer> unusedEntities;
 ```
-
+The queue of unused entity values
-<br>
-
 

docs/entity/dir.md

@@ -1,5 +1,8 @@
 *| [JavaECS](../README.md) | [docs](../overview.md) | entity*
 # Overview
 ### In this folder
-*[Entity.md](./Entity.md)
+* [Entity.md](./Entity.md)
-*[EntityManager.md](./EntityManager.md)
+* [EntityManager.md](./EntityManager.md)
+
+### See source file:
+* [EntityManager.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/EntityManager.java)

docs/system/ECSSystem.md

@@ -30,19 +30,20 @@ public ECSSystem(){}
 <br>
 
 ## Methods
+> These two functions are labelled as abstract (must be implemented) to indicate the type of implementation required.
+> It is not required to add functionality to them. Parametrised versions can also be added.
 ### init
 ``` java
-public void init(){}
+abstract void init();
 ```
 Functionality that needs to occur at the initialisation of the system should be performed here
 * `init()` should be called only once, before the system is utilised
-* An example of the type of call that could be made here is opening a file
 
 <br>
 
 ### update
 ``` java
-public void update(){}
+abstract void update();
 ```
 Functionality that needs to be called regularly should be defined here
 * `update()` is intended to be called regularly

docs/system/SystemManager.md

@@ -18,63 +18,68 @@ Before attempting to use a system, it must be registered.
 
 Registration requires a call to `registerSystem(String systemName, ECSSystem system)`, with params of the `String name` and a object reference of the [ECSSystem](./ECSSystem.md). Using the object reference, a system can be invoked at any time.
 
+See [SystemManager.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/SystemManager.java) for the full implementation.
+
 ## Constructors
 Default constructor
 ``` java
 public SystemManager(){}
 ```
+
 <br>
 
 ## Methods
 
 ### entityDestroyed
 ``` java
-public void entityDestroyed(int entity);
+protected void entityDestroyed(int entity);
 ```
-Removes the specified entity from every system, if it was associated
+Signals the SystemManager that an entity was destroyed. Removes the entity from each system's tracked entities
 
 <br>
 
 ### entitySignatureChanged
 ``` java
-public void entitySignatureChanged(int entity, BitSet entitySignature);
+protected void entityRegistrationsChanged(int entity, BitSet entityRegistrations);
 ```
-Checks the entity's new signature against the current registrations. Registers the entity if it wasn't previously registered, or removes it if it is no longer registered.
+Signals the SystemManager that an entity had its registrations changed; iterates through each system validating the entities list
 
 <br>
 
 ### registerSystem
 ``` java
-public boolean registerSystem(String systemName, ECSSystem system);
+protected boolean registerSystem(Type systemType, ECSSystem system);
 ```
 Registers the specified system name and system reference to this manager.
 
-*adds a `systemName:system` pair to [systems](#systems)*
+*adds a `systemType:system` pair to [systems](#systems)*
 
-*and a `systemName:new BitSet()` pair to [signatures](#signatures)*
+*adds a `systemType:new BitSet()` pair to [registrationSignatures](#registrationSignatures)*
 
 <br>
 
 ### setSignature
 ``` java
-public void setSignature(String system, BitSet registrations);
+protected void setRegistrationSignature(Type systemType, BitSet registrations);
 ```
-Sets the required signature of the `system`
+Sets the registrations the system requires
 
 <br>
 
 ## Fields
-### signatures
+### registrationSignatures
 ``` java
-Map<String, BitSet> signatures = new HashMap<>();
+private Map<Type, BitSet> registrationSignatures = new HashMap<>()
 ```
+The mapped list of required registrations
 
 <br>
 
 ### systems
 ``` java
-Map<String, ECSSystem> systems = new HashMap<>();
+private Map<Type, ECSSystem> systems = new HashMap<>();
 ```
+The mapped list of system instances
 
 <br>
 

docs/system/dir.md

@@ -1,7 +1,10 @@
 *| [JavaECS](../README.md) | [docs](../overview.md) | system*
 # Overview
-| **In this folder** |
+### In this folder
-|-|
+* [ECSSystem.md](./ECSSystem.md)
-| [ECSSystem.md](./ECSSystem.md) |
+* [System.md](./System.md)
-| [System.md](./System.md) |
+* [SystemManager.md](./SystemManager.md)
-| [SystemManager.md](./SystemManager.md) |
+
+### See source files:
+* [ECSSystem.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/ECSSystem.java)
+* [SystemManager.java](/BrychanD/JavaECS/src/branch/master/javaecs/src/main/java/nz/ac/massey/javaecs/SystemManager.java)