phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6o6c_0633/05_2023/6o6c_0633_updated.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6o6c_0633/05_2023/6o6c_0633.map refinement.macro_cycles=10 scattering_table=electron resolution=3.1 write_initial_geo_file=False /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6o6c_0633/05_2023/6o6c_0633_ligands.cif >& 6o6c.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6o6c_0633/05_2023/6o6c_0633.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6o6c_0633/05_2023/6o6c_0633.map 3.1
Refinement ran but no refined model file.