[phenixbb] GUI admin issues

Yarrow Madrona amadrona at uci.edu
Mon Jul 8 16:45:10 PDT 2013


> On Mon, Jul 8, 2013 at 3:49 PM, Yarrow Madrona <amadrona at uci.edu> wrote:
>> 1. We recently moved all of our data from one hard drive to another.
>> However, we do not know how to change the directory for all of our
>> projects. The directory is similar but the hard drive is now called
>> tp3home instead of tp2home.
>> We found a .phenix directory that has  a file with a list of projects
>> and
>> directories. We updated the directories but this did not make a
>> difference
>> in the GUI.
> Yes, it is non-trivial at the moment.  The most appropriate mechanism:
> - move ~/.phenix somewhere else (don't delete, just to be safe, but
> get it out of the way so a fresh database can be created)
> - open the GUI, set up a tutorial or temporary project just to get to
> the main GUI
> - under "Projects" menu, pick "Import project...", and pick the
> directory you want to import
> This should rewrite *most* of the paths, at least in configuration files.
>> 2. Is there a quick way to specify which ligand or amino acid to remove
>> in
>> the GUI with doing simmulated annealing or better to do manually?
> Not within the phenix.refine GUI, but I was intending to add this
> feature.  Stay tuned.
> -Nat
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Yarrow Madrona

Graduate Student
Molecular Biology and Biochemistry Dept.
University of California, Irvine
Natural Sciences I, Rm 2403
Irvine, CA 92697

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