added method isBetweenLayers to the obstacles
local changes
Added angle index
Merge branch 'kirill' of https://github.com/rossinelli/CTC into kirill

Conflicts:
	vanilla-walls/main.cpp
minor modifications
uncommented check out code in obst-check.cpp
Merge branch 'master' into kirill

Conflicts:
	vanilla-walls/Makefile
	vanilla-walls/main.cpp
Refactoring: got rid of mutual dependencies between classes Particles and Bouncers.
Moved them from main to separate translation units
Added missed files to the previous commit
Modified Particles to support different sizes per dim
Modified Makefile because there are new targets
Added frozen layers equilibration
Added saru tag offset for the obstacles
Merge branch 'kirill' of github.com:rossinelli/CTC into kirill
minor cleaning in the code