OpenMM does not give progress for minimization, just wait...
usage: rna_minimize.py [-h] [-v] [-b BOX_SIZE] [-sp] [--pymol] file
rna_minimize.py: error: unrecognized arguments: OiGIIi_AF3_pred_withoutMSA_rpr.pdb OiGIIi_AF3_pred_withoutMSA_rpr_rpr.pdb
DONE!