Redid A_1_13a case for libMesh dof update.

Also starting to try to streamline input files for "automated"
final case generation.
Rerun of C_1_15 case post libMesh dof update.
Updated C_2_38 run post libMesh dof update
Updated D_1_18 post libMesh dof update
Fixed E_1_12 grid. Had SHELL4 instead of QUAD9
E_1_12 case
Setting up K_2_63 to be rerun.
Setting up O_2_28 case to be rerun
F_1_17 case
Starting to setup other cases.

Still need to update the SimluationParameters for each of these.