phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5fj8_3178/05_2023/5fj8_3178_neut.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5fj8_3178/05_2023/5fj8_3178.map refinement.macro_cycles=10 scattering_table=electron resolution=3.9 write_initial_geo_file=False >& 5fj8.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5fj8_3178/05_2023/5fj8_3178.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5fj8_3178/05_2023/5fj8_3178.map 3.9
Refinement ran but no refined model file.