Reworked the movie utils to general plot management.
Added Matlab support to videosaving
Merge branch 'master' into John's-branch
the water top- and side-view are now subplots

made 'toConstantTime' and 'topViewOfWater' more readable
Added 'hold on/off' option to plots.
Plotting is now its own function

Some work on PHI for 2/sigma.
Bathymetry is now stored as a structure.
moved plot utils to folder

added 'plotID' which keeps plot windows from proliferating.
Moved plotting out of the main function
End of day.
Moved utility functions into 'utils' folder to reduce clutter.
Added a 'save' option for Dima that saves the 'results' struct.
Merge branch 'John's-branch' of https://github.com/Technochrome/Tsunami-REU-2013-code- into John's-branch

Conflicts:
	toConstantTime.m
	trapModel.m
.savedTrapModel is huge, and I'm trying to remove it from the repo. I'm struggling at that.
runModel has been refactored out.
- Whole tree has been fixed; I didn't need to do any commits
enhanced 'readOptions' to support cell arrays and structures on top of string-value pairs
Moved default options out of main file,
Closed most open issues
Merge branch 'John's-branch' into Matt's-branch

Conflicts:
	General Prabolic case/Save video.txt
	General Prabolic case/eta_0.m
	General Prabolic case/parasolution.m
	captureFrame.m
	endMovieCapture.m
	eta_0.m
	startMovieCapture.m
	toConstantTime.m
	topViewOfWater.m
	trapModel.m