phenix.real_space_refine /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6skg_10224/12_2021/6skg_10224_updated.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6skg_10224/12_2021/6skg_10224.map refinement.macro_cycles=10 scattering_table=electron resolution=2.65 write_initial_geo_file=False /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6skg_10224/12_2021/6skg_10224_ligands.cif >& 6skg.txt failed.

/net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6skg_10224/12_2021/6skg_10224.pdb /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/6skg_10224/12_2021/6skg_10224.map 2.65
Refinement ran but no refined model file.