Problem of visualizing phase in PDFgui on Mac OS X

[Long Yang]

Hi,

After we installed the visualization software (such as VESTA, PyMOL), if we visualize phase using PDFgui in Mac OS X, it will give us an error ([Errno 13] Permission denied). The solution (by Dr. Juhas) is in the following:

To start a Mac application from a Terminal use:

   open -a /Applications/VESTA/VESTA.app somefile.cif

To do the same from PDFgui go to the Preferences menu and set:

   viewer executable:  /usr/bin/open

   Argument string:    -a /Applications/VESTA/VESTA.app %s

   Structure format:   whatever VESTA needs

The reason is that on Mac OS X the /Applications/Something.app is a directory containing the program executable, dynamic-link libraries, and other data - images, media, documentation, etc., used by the application.  As a directory Something.app is not directly executable.

Bests,

Long