Re: [PyMOL] MacPyMol working dir

2015-04-16 Thread Thomas Holder
Hi gg-kawa, Is your question whether the File Open dialog of the MacPyMOL interface can start in the current directory? Right now this is not possible (hard coded to use the home directory), but this is a reasonable feature request and I'm sure we can change that for the next release.

Re: [PyMOL] MacPyMol working dir

2015-04-16 Thread Sampson, Jared
Hi Luigi - To get the right working directory, you can use the full path to the binary followed by the `-d` flag to run a command (`cd $PWD`) once PyMOL opens. Personally, I'd alias it in ~/.profile like this: alias macpymol='/Applications/MacPyMOL.app/Contents/MacOS/MacPyMOL -d cd $PWD'

[PyMOL] MacPyMol working dir

2015-04-16 Thread Luigi Cavallo
Hi, I just started to use MacPyMol from standard unix like Pymol, and I would like to start MacPyMol from a specific working directory, to have pdb and pse files I am working on right at hand. However, I can’t understand how to get this done. I can start by command line open -a MacPyMol

[PyMOL] creating a virus capsid using supercell.py

2015-04-16 Thread Marcelo Marcet
Hi Everyone, I have been trying to build a virus capsid using pymol. The biological unit for the complete structure is not available. :( My first attempt at getting this done was by using the “rotate” and “translate” commands. Unfortunately, these commands can only move objects either relative