phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/7ni5_12351/12_2022/7ni5_12351_updated.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/7ni5_12351/12_2022/7ni5_12351.map refinement.macro_cycles=10 scattering_table=electron resolution=2.78 write_initial_geo_file=False /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/7ni5_12351/12_2022/7ni5_12351_ligands.cif >& 7ni5.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/7ni5_12351/12_2022/7ni5_12351.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/7ni5_12351/12_2022/7ni5_12351.map 2.78
Refinement ran but no refined model file.