Contents
- For example, provide flexibile fitting a 4 Angstrom filtered map, 2 Angstrom filtered map, then non-filtered map.
- Tools -> Volume Data -> Volume Viewer -> Tools -> Volume Filter -> (Set Width, e.g. 4,2) -> Filter
- File -> Save map as -> (name a filtered map) -> Save
- For example, phenix.cryo_fit2 nproc=40 model.pdb model.map resolution=3
Although pdb text files show similar scales, input (before cryo_fit2) and output (after cryo_fit2) pdb files may show different molecule sizes in Pymol when Doo Nam used map that was made from phenix.map_box
Troubleshooting is ongoing.
In the meantime, please use UCSF chimera to visualize bio-molecules instead.
When a user sees above message, please consider to enter a correct resolution.
Doo Nam uses either EMDB reported resolution or phenix.mtriage derived resolution to properly run cryo_fit2.
- "Sorry: Crystal symmetry mismatch between different files.
- (378, 378, 378, 90, 90, 90) P 1
- (103.95, 91.35, 89.25, 90, 90, 90) P 1"
- For example, when a wrong CRYST1 header exists above a correct CRYST1 header, this message appeared.