Change over 2D AMRClaw code to use new Riemann function interface

Note that in this commit are changes to a routine for running in a 1D mode
using the 2D code, i.e. `rpn2from1d.f`.  It appears to never have been
converted to the permuted indices either.
Change over 3D code to new Riemann func interface
change examples/regression_tests.py so it does not die if some things fail
Added 3d regression test
added missing regression_data_test3.txt
fixed typos in flux3fw.f and qad.f as noted in PR #83
fixed typos in flux3.f for rp reordering
Merge branch '3d_test' into change-riemann-func-call-order-fixes

* 3d_test:
  added missing regression_data_test3.txt
  Added 3d regression test
  change examples/regression_tests.py so it does not die if some things fail
Merge pull request #85 from rjleveque/change-riemann-func-call-order-fixes

Change Riemann Function Interfaces - fixed
Errant comma in OMP directives destroyed
was doing some space allocation inside parallel loop. moved to outside loop for thread safety
Merge pull request #86 from mjberger/flaggerBugFix

was doing some space allocation inside parallel loop. moved to outside ...