Added nuclear option for gh-publish target to keep repo clean.  Assumes that repo is always autogenerated and can be completely erased and regenerated.
Move usersguide up one level
Move all docs up one level.
Update for moved doc source
Remove publish option from this Makefile
Add back gh-publish, but be sure to only add newly generated pages from BUILDDIR
fixed formatting
Merge pull request #145 from svalinn/format_fix

Fixes formatting identified in #144
Merge remote-tracking branch 'svalinn/alpha_release'
Merge branch 'beta_fludag'
added boundary checks and function like mcnp chkcel
added protoype for check_vol
check for particle location during tracking
Merge branch 'tracking_modifications' of https://github.com/svalinn/DAGMC into tracking_modifications