Updated NUOPC cap builds

Cleanup on atm_comp_nuopc.F90 (including updating based on changes from CAM's NUOPC cap)
Fix buildnml to skip groups which are not being used in case (due to CIME change?)
Update Externals.cfg to cam6_3_037
Improvements to test output (<root>/test/run_tests)
Move call to physics_types_tstep_init to avoid overwriting data
Fix pylint issue with GitHub actions CI process

Fixes #165 Fixes #169 Fixes #170 Fixes #171

ESCOMP / CAM-SIMA