Hi Nat, Thanks for your reply. I am now writing a bash script to call phenix.phaser. I do not want to use shell command like mv or cp the files to desired directory, as I will generate a lot outputs. I hope I could change some parameters in params.eff to achieve this goal more easily. But as you said, it is not possible, right? Just for confirm. Thanks for your reply. GP On Mon, Jul 25, 2011 at 7:41 PM, Nathaniel Echols wrote:

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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

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above case). The output files are always put in current working

On Mon, Jul 25, 2011 at 8:09 AM, G Y wrote: the directory.

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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.

-Nat _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb