phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5jxl_8179/10_2023/5jxl_8179_neut.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5jxl_8179/10_2023/5jxl_8179.map refinement.macro_cycles=10 scattering_table=electron resolution=3.5 write_initial_geo_file=False >& 5jxl.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5jxl_8179/10_2023/5jxl_8179.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5jxl_8179/10_2023/5jxl_8179.map 3.5
Refinement ran but no refined model file.