Merge pull request #466 from Unity-Technologies/docs/doxygen

Finalized doxygen pages

docs/Readme.md

  * [ML-Agents Glossary](Glossary.md)
  * [Limitations & Common Issues](Limitations-and-Common-Issues.md)
  
-## C# API and Components
- * Academy
- * Agent
- * Decision
- * Monitor
-
-## Python API
+## API Docs
+ * [API Reference](API-Reference.md)
- 

docs/dox-ml-agents.conf

 # could be handy for archiving the generated documentation or if some version
 # control system is used.
 
-PROJECT_NUMBER         = v0.2
+PROJECT_NUMBER         = v0.3
 
 # Using the PROJECT_BRIEF tag one can provide an optional one line description
 # for a project that appears at the top of each page and should give viewer a
 # spaces. See also FILE_PATTERNS and EXTENSION_MAPPING
 # Note: If this tag is empty the current directory is searched.
 
-INPUT                  = ML-Agents-Overview.md \
-                         Background-Unity.md \
-                         Background-Machine-Learning.md \
-                         Background-TensorFlow.md \
-                         Installation.md \
-                         Installation-Docker.md \
-                         Background-Jupyter.md \
-                         Getting-Started-with-Balance-Ball.md \
-                         Learning-Environment-Examples.md \
-                         Learning-Environment-Create-New.md \
-                         Learning-Environment-Design.md \
-                         Learning-Environment-Design-Agents.md \
-                         Learning-Environment-Design-Academy.md \
-                         Learning-Environment-Design-Brains.md \
-                         Training-ML-Agents.md \
-                         Training-PPO.md \
-                         Training-Curriculum-Learning.md \
-                         Training-Imitation-Learning.md \
-                         Using-TensorFlow-Sharp-in-Unity.md \
-                         Training-on-Amazon-Web-Service.md \
-                         Using-Tensorboard.md \
-                         Python-API.md \
-                         Feature-Broadcasting.md \
-                         Feature-Monitor.md \
-                         Limitations-and-Common-Issues.md \
-                         ../unity-environment/Assets/ML-Agents/Scripts \
-                         ../python/unityagents
+INPUT                  = ../unity-environment/Assets/ML-Agents/Scripts/Academy.cs \
+                         ../unity-environment/Assets/ML-Agents/Scripts/Agent.cs \
+                         ../unity-environment/Assets/ML-Agents/Scripts/Monitor.cs \
+                         ../unity-environment/Assets/ML-Agents/Scripts/Decision.cs
 
 # This tag can be used to specify the character encoding of the source files
 # that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses

docs/doxygen/Readme.md

 
 To generate the API reference as HTML files, run:
 
-    doxygen ml-agents.conf
+    doxygen dox-ml-agents.conf

unity-environment/Assets/ML-Agents/Scripts/Agent.cs

     public bool resetOnDone = true;
 
     /// <summary>
-    /// Whether to enable On Demand Decision Making or make a decision at 
+    /// Whether to enable On Demand Decisions or make a decision at 
-    /// Number of actions between decisions (used when On Demand Decision
-    /// Making is turned off).
+    /// Number of actions between decisions (used when On Demand Decisions
+    /// is turned off).
     /// </summary>
     public int numberOfActionsBetweenDecisions;
 }
     int stepCount;
 
     // Flag to signify that an agent has been reset but the fact that it is
-    // done has not been communicated (required for On Demand Decision Making).
+    // done has not been communicated (required for On Demand Decisions).
     bool hasAlreadyReset;
 
     // Flag to signify that an agent is done and should not reset until

unity-environment/Assets/ML-Agents/Scripts/CoreBrainHeuristic.cs

 using UnityEditor;
 #endif
 
-/// CoreBrain which decides actions using developer-provided Decision.cs script.
+/// CoreBrain which decides actions using developer-provided Decision script.
 public class CoreBrainHeuristic : ScriptableObject, CoreBrain
 {
     [SerializeField]

docs/API-Reference.md

+# API Reference
+
+Our developer-facing C# classes (Academy, Agent, Decision and 
+Monitor) have been documented to be compatabile with 
+[Doxygen](http://www.stack.nl/~dimitri/doxygen/) for auto-generating HTML 
+documentation.
+
+To generate the API reference, 
+[download Doxygen](http://www.stack.nl/~dimitri/doxygen/download.html) and run
+the following command within the `docs/` directory:
+
+    doxygen dox-ml-agents.conf
+
+`dox-ml-agents.conf` is a Doxygen configuration file for ML-Agents
+that includes the classes that have been properly formatted. 
+The generated HTML files will be placed
+in the `html/` subdirectory. Open `index.html` within that subdirectory to 
+navigate to the API reference home. Note that `html/` is already included in 
+the repository's `.gitignore` file.
+
+In the near future, we aim to expand our documentation
+to include all the Unity C# classes and Python API.