In the midst of updating cluster_traj_all.sh, it has visible bugs.
visually debugged cluster_traj_all.sh, time to debug via actual job submits
Updated cluster_traj_all.sh with warning flag
Revised errors found upon running, did not error check for submitting
Updated cluster_traj_all.sh -- fixed mdrun -deffnm .tpr into -deffnm
Updated cluster_traj_all.sh for minor fixes.
Merge remote-tracking branch 'origin/catamount' into hopper
Merge branches 'hopper' and 'master'