[phenixbb] 'Tasks' tab missing from 1.3b GUI and HL coefficients from a model

Peter Zwart PHZwart at lbl.gov
Wed Jun 20 16:04:11 PDT 2007

I think that the missing 'task' tab is a feature. Look under 'projects' 
-> 'preferences' to have the task window displayed.

One way of improving maps is by using the autobuild wizard. If you run 
the gui, you might (or not) want to specify that you want to use 
'rebuild in place' (builds 'around' your current chains) and that you 
would like to  use the 'full omit' procedure to reduce model bias. This 
last option might take some time though!

The wizard might be smart enough to pick up on the 4 fold NCS by the 
presence of the model and use that during density modification, although 
I am not sure about that. I think it will use the NCS information during 




Stephen Graham wrote:
> Hi all,
> I recently (well, yesterday) installed the latest beta of phenix and
> everything is working great from the command line (which is how I use
> phenix 99.9% of the time).
> However, I fired up the GUI and found that the 'Tasks' tab appears to
> be missing from the 'Strategy Interface'.  Is this a bug, a
> manifestation of an installation problem, or a feature?
> And... I was trying to use the GUI for prime-and-switch phasing to
> improve the maps for a partly-refined MR solution.  What is the
> recommended path for creating HL coefficients from a model (from
> simulated annealing in phenix.refine) so that I can use the GUI's
> resolve 'prime-and-switch' strategy?  Or is there an even better way
> of removing model bias and density-improving a big, low-res, MR-solved
> structure with 4-fold NCS in phenix?
> Thanks,
> Stephen

More information about the phenixbb mailing list