On Jan 29, 2009, at 9:26 AM, Stephen Graham wrote:
Apologies if I've missed this in the documentation, but is there any way to set 'site-wide' defaults for, say, phenix.refine? That is, I'd like to modify the default parameters for phenix.refine so that occupancy refinement is turned off by default, the output.serial_format is different, geo files aren't created, always use F/SIGF not I/SIGI, etc.
This is possible to some extent with the phenix.refine GUI, although it's very much a work in progress.
P.S. I know I can change this by hand in my .def file and then propagate the .def file through subsequent rounds of refinement for a given project. It would just be nice to have my default personal preference parameters set (~/.phenix?) so I don't need to change them each time I start a new project...
Right now the (new) GUI creates a directory ("phenix") in each project that contains various meta-information, and a sub-directory "defaults" which contains any files to be used automatically. It will also read in a global defaults file if you specify one in the preferences. For the command-line version, couldn't you just alias phenix.refine to "phenix.refine ~/.phenix/refine_defaults.def"? ------------------- Nathaniel Echols Lawrence Berkeley Lab 510-486-5136 [email protected]