phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5bkf_9403/03_2023/5bkf_9403.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5bkf_9403/03_2023/5bkf_9403.map refinement.macro_cycles=10 scattering_table=electron resolution=3.6 write_initial_geo_file=False >& 5bkf.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5bkf_9403/03_2023/5bkf_9403.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5bkf_9403/03_2023/5bkf_9403.map 3.6
Refinement ran but no refined model file.