Hi Colin, I haven't tried it, but yes, you should be able to do this If you specify two_fofc_in_rebuild=True then autobuild should use the phenix.refine map in rebuilding. Then you can tell phenix refine how to make a map (or how to do anything else you want to specify) with a standard phenix.refine parameters file "refine.eff" by saying: refine_eff_file_list=refine.eff Note that a few parameters in phenix.refine are specified directly by phenix.autobuild (they are listed in the autobuild manual) but by far most can be set with a refine.eff file. Let me know if that doesn't do it! All the best, Tom T
Hi,
can autobuild be setup to use kicked maps when starting from a molecular replacement model?
Thanks
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