[phenixbb] Refinement Strategy vs. R gap

Nathaniel Echols nechols at lbl.gov
Wed Mar 16 13:25:45 PDT 2011

On Wed, Mar 16, 2011 at 1:19 PM, Yuri <yuri.pompeu at ufl.edu> wrote:
> I checked the log file and it looks like it picked residues to be
> anisotropic, but when I re-ran it with the automatic selection it did
> not. Sometimes I have to exit out and re open the GUI so it picks up on
> changes.

That sounds like a bug.  Can you send me the parameter files and log files?

> On a different note, I am having trouble running TLS. After I find the
> optimal number of groups (either through phenix or TLSMD server) my
> selection shows up on the GUI but there is no button that lets me close
> that window to move on with the refinement. The only way to close that
> window is by hitting Cancel, clearly not what we want...
> If I dont close the window, phenix.refine says I am still editing TLS
> params and will not start obviously.

Definitely a bug - it is fixed in the nightly builds, but I will send
you the patch for 1.7.  However, the "Update and exit" button on the
toolbar (green checkmark) closes the window.  (So does the cancel


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