Added comments and 3d gaussian filter

Removed lines inserted by auto merge.
Refactored 3d plasma:
  - added IndexRef arrays rather than copying the values to a temporary
array.
  -  adjusted 3d plasma to include cube centers when calculating cube
faces.
Corrected syntax errors
Corrected syntax
Implemented vectorized implementation

Faster implementation!
Merge branch 'master' of https://github.com/calypsoh13/miscScripts
Also, edited docstrings.
Conflicts:
	plasma.py