[phenixbb] phenix.phaser params.eff output directory

Nathaniel Echols nechols at lbl.gov
Mon Jul 25 10:41:55 PDT 2011

On Mon, Jul 25, 2011 at 8:09 AM, G Y <gysubscribe at gmail.com> wrote:
> I am writing a script for phenix.phaser. The keyword "output_dir" seems not
> work. In params.eff file I give it a line like:
> solution = None
> output_dir = /home/.../somedir/
> ...
> But I can not generate output file in the specified directory(somedir in the
> above case). The output files are always put in current working directory.
> Did I choose a wrong keyword to do this? What would be the correct way?

This parameter exists solely for use in the GUI; it won't have any
effect on the command line.  In hindsight this probably wasn't the
best way to handle it - I should have enclosed it in a "gui {}" block
to make the purpose clear.  However, the intention was always that the
program will output files to the current working directory, as this
simplifies things considerably for the GUI.  Depending on what you're
trying to accomplish, calling phenix.phaser from a shell or Python
script which changes to (and creates if necessary) the desired
directory is probably the best solution.


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