On Thu, Feb 2, 2012 at 6:56 AM, Subhani Bandara
I need to input a parameter file describing the bond lengths of a metal chelator complex in my protein. I used a text file containing the commands with .params extension. when I add this file in GUI inputs in refinement, it gives a message "Phenix did not recognize the file type". What is the file type I should use?
I just tried copying the parameter block you sent into a file and parsing it as a Phenix parameter file, and it works fine. Are you certain you included everything in the file? You can test the syntax on the command line by running this command: libtbx.phil bonds.params which I'm hoping will spit out an error in your case. (I'll add this command as a GUI utility too.) The extension should not matter, but .params will be automatically recognized by the GUI as a parameter file, as will ".eff" and ".phil". (Of course, if the GUI can't actually parse the file, it will still come up with an unknown file type error.) -Nat