phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6qc3_4495/05_2023/6qc3_4495_updated.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6qc3_4495/05_2023/6qc3_4495.map refinement.macro_cycles=10 scattering_table=electron resolution=4.2 write_initial_geo_file=False /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6qc3_4495/05_2023/6qc3_4495_ligands.cif >& 6qc3.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6qc3_4495/05_2023/6qc3_4495.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6qc3_4495/05_2023/6qc3_4495.map 4.2
Refinement ran but no refined model file.