Merge pull request #64 from pgleeson/master

Minor changes to main readme file

.gitignore

@@ -1,3 +1,4 @@
+/release/Smoothed-Particle-Hydrodynamics
 # Compiled Object files
 *.slo
 *.lo

README.md

@@ -1,34 +1,36 @@
 ![Sibernetic](http://i.imgur.com/Hbsw6Zs.png)
 
-Sibernetic is a fluid mechanics simulator developed for simulations of C. elegans in the [OpenWorm project](http://www.openworm.org) developed for the [OpenWorm](http://openworm.org) project by Andrey Palyanov, Sergey Khayrulin and Mike Vella as part of the [OpenWorm team](http://www.openworm.org/people.html). Sibernetic provides an implementation of the PCISPH contractile matter algorithm for simulating muscle tissue and is applies to C. elegans locomotion.
+Sibernetic is a fluid mechanics simulator developed for simulations of C. elegans developed for the [OpenWorm](http://openworm.org) project by Andrey Palyanov, Sergey Khayrulin and Mike Vella as part of the [OpenWorm team](http://www.openworm.org/people.html). Sibernetic provides an implementation of the PCISPH contractile matter algorithm for simulating muscle tissue and is being applied to C. elegans locomotion.
 
-When driven by [Hodgkin Huxley dynamics](https://en.wikipedia.org/wiki/Hodgkin%E2%80%93Huxley_model) contractile matter is called Electrofluid.
+When driven by electrical activity generated by simulated neurons using the [Hodgkin Huxley model](https://en.wikipedia.org/wiki/Hodgkin%E2%80%93Huxley_model) contractile matter is called Electrofluid (this feature is in the early stages of development).
 
-Sibernetic is primarily written in  C++ and OpenCL, it also provides a Python API.
+Sibernetic is primarily written in  C++ and OpenCL, and also features interaction with Python scripts.
 
-There is a separate effort lead by [Giovanni Idili](https://github.com/gidili) and [Sergey Khayrulin](https://github.com/skhayrulin) to port this code to Java, as part of the [Geppetto simulation framework](https://github.com/openworm/OpenWorm/wiki/Geppetto--Overview). 
+There is a separate effort lead by [Giovanni Idili](https://github.com/gidili) and [Sergey Khayrulin](https://github.com/skhayrulin) to port this code to Java, as part of the [Geppetto simulation framework](http://docs.geppetto.org/en/latest/). 
 
 Compiling / running (Linux/mac)
 ------------------------------
 
 **Linux**
 
-Install OpenCL on Ubuntu. We suggest you initially go with [AMD OpenCL drivers](http://developer.amd.com/tools-and-sdks/heterogeneous-computing/amd-accelerated-parallel-processing-app-sdk/downloads/) as we have found these to be the most stable and complete. You can also try [Intel's drivers](http://develnoter.blogspot.co.uk/2012/05/installing-opencl-in-ubuntu-1204.html). This step often causes problems, contact the [openworm-discuss](https://groups.google.com/forum/#!forum/openworm-discuss) mailing list if you encounter issues. The AMD drivers include samples in /opt/AMDAPP/samples/opencl/bin which you can use to verify your OpenCL support is working.
+Install OpenCL on Ubuntu. We suggest you initially go with [AMD OpenCL drivers](http://developer.amd.com/tools-and-sdks/heterogeneous-computing/amd-accelerated-parallel-processing-app-sdk/downloads/) as we have found these to be the most stable and complete. You can also try [Intel's drivers](http://develnoter.blogspot.co.uk/2012/05/installing-opencl-in-ubuntu-1204.html). This step often causes problems, contact the [openworm-discuss](https://groups.google.com/forum/#!forum/openworm-discuss) mailing list if you encounter issues, or check [here](https://github.com/openworm/Smoothed-Particle-Hydrodynamics/issues). The AMD drivers include samples in /opt/AMDAPP/samples/opencl/bin which you can use to verify your OpenCL support is working.
 
 You'll also need a variety of libraries. In ubuntu, install the dependencies with:
 
 ```
 sudo apt-get install g++ python-dev freeglut3-dev nvidia-opencl-dev libglu1-mesa-dev libglew-dev python-numpy
 ```
 
-Next, navigate to the `Release` folder and run:
+When these are installed run:
 
 ```
 make clean
 make all
 ```
 
-**Mac**: stay in the top-level folder and run:
+**Mac**
+
+From the top-level folder and run:
 
 ```
 make clean -f makefile.OSX
@@ -51,7 +53,7 @@ g++ -L/usr/lib -L/usr/lib/python2.7 -o "Smoothed-Particle-Hydrodynamics"  ./src/
 Finished building target: Smoothed-Particle-Hydrodynamics
 ```
 
-Then navigate to the top-level folder in the hierarchy (e.g `Smoothed-Particle-Hydrodynamics`) and set your `PYTHONPATH`:
+Set your `PYTHONPATH`:
 
 ```
 export PYTHONPATH=$PYTHONPATH:'./src'