Removed older version of openbabel from our code. We now have a configure check to see if openbabel is installed and then we link to the stuff we need. Conversion to OOPSE's md format is handled by only one application (atom2md), so most of the work went on there. ElementsTable still needs some work to function in parallel.
Using OpenBabel element table to pick vdw radii for hydrodynamics if the LJ sigma can't be found.
refactor Hydrodynamics module.
Adding RoughShell and BeadModel
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