Hi,
third Q? i want to generate anomalous difference map using phenix.map
if your input data file contains anomalous fobs+ and fobs- (or iobs+ and iobs-) then phenix.maps (as well as phenix.refine) will generate anomalous difference map automatically. All you need to do is: 1) Run phenix.maps to create a parameter file; 2) Edit that parameter file: specify input data file and labels, PDB file, etc; 3) Run it: phenix.maps maps.params This is all explained in great details here: http://phenix-online.org/documentation/phenix_maps.htm Alternatively, you can use PHENIX GUI to do the same thing: it is very easy and may be a better option for someone who is uncomfortable with running things in the command line, editing parameter files, etc. Pavel.