Hi Hailaing,

By the way, if it is possible, prior to generating the 2mFo-DFc map
coefficients, can you also include the solvent modeling

you can't do it sensibly without a atomic model. The total model structure factor used everywhere (in R-factor, maps, refinement, ... etc calculations) is:

Fmodel = scale * exp(-h*U_overall*ht) * (Fcalc + k_sol * exp(-B_sol*s^2) * Fmask)

where Fmask is computed from atoms.

Of course, assuming your input Fcalc are from atomic model, one can use Babinet based bulk-solvent model, but this is not implemented in PHENIX because of well known deficiencies of this model.

This is why most of tools that compute R-factors, maps, do refinement etc require PDB file with a model (and not just Fcalc) and a data file with Fobs.

and anisotropic
scaling based on the provide Fo/Fc data?

This can be done without atoms.

Let me know if you still want this. Also it would be encouraging for me to know why you want this - just in case I may be able to suggest an alternative way to do what you want.

Pavel.