New version flag2refine2.f for new flagging
New flagging routines added to Makefile
debug flags on for debugging new flagging memory problem.
makefile changes
add -O2 flag to Makefile
Merge branch 'master' into changeFlagging

Conflicts:
	examples/tsunami/bowl-slosh/Makefile
	examples/tsunami/chile2010/Makefile
Add shoreline contour
Initial addition of holland wind model module
Add resolution function to topotools
Add new york example
Add holland storm module

Modified storm surge modules to use new holland storm model.
Refactor src routines
Change to match new source term code
Changes to source terms
Update of storm surge routines to match new geoclaw ones
Add multilayer depth constants
Add python surge data
Change legacy code to match new storm modules
Bug fix to data file names
Create new idealized storm surge example