Merge pull request #13 from briandrawert/refactor

bug fixes to make the models work, but the assemble() function is broken
work in progress
Merge pull request #14 from briandrawert/refactor

Adding the URDMEResult class
work in progress
Merge pull request #15 from briandrawert/refactor

adding the volume vector to the model object
Fix to handle boundaries
Merge conflicts
Divide copy number by volume to get concentration when outputting Paraview format frames
Fixed issue that led to wrong placement of molecules in placeNear
Added reaction in simple_diffusion2 to test localization
mincde works
Fixed cylinder demo for the new subdomain style