[PyMOL] paths in MacPyMol

[Andrew W. <sen...@gm...>]

I recently switched to MacPyMol 0.99.  I frequently open a pdbfile
using the command line in OsX using the "open" command.  This opens up
the pdbfile in macpymol.  The problem is that the present working
directory is not set up properly.

For instance:
% cd pdbfiles
% open test.pdb
PyMol > pwd

I get "/" as the path

if I open the pdb in the following way:
% cd pdbfiles
% /Applications/MacPyMOL.app/Contents/MacOS/MacPyMOL test.pdb
PyMol > pwd

I get "/Users/andrew/pdbfiles" as the path.

Does anyone know how to get around this problem?  Incidently I have
the same issue when clicking on pdbfiles using the finder.


Andrew Wollacott, PhD
Baker Research Lab
University of Washington