phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5ykg_6833/05_2022/5ykg_6833_updated.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5ykg_6833/05_2022/5ykg_6833.map refinement.macro_cycles=10 scattering_table=electron resolution=4.57 write_initial_geo_file=False >& 5ykg.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5ykg_6833/05_2022/5ykg_6833.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5ykg_6833/05_2022/5ykg_6833.map 4.57
Refinement ran but no refined model file.