Issue #146: fix get-repo-instructions
Merge pull request #156 from svalinn/cleanup_alpha

Issue #146: fix get-repo-instructions
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 remote-tracking branch 'svalinn/alpha_release'
Merge branch 'beta_fludag'
minor nomenclature change
Ignore .o files at a higher level
Setup fludagwrite_assignma() for processing detectors
Issue #149: cleanup function to prepare for additional records
Issue #149:  A few nomenclature changes
Issue #155: draft, unfinished version new class
Prepare for Meshtally_refactor-style google tests (unfinished)
Issue #155: Add new class and compile
Issues #149 and #150, intermediate commit