Re: [PyMOL] APBS problem

2012-08-30 Thread Thomas Holder
Hi Warren, run pdb2pqr with the --whitespace argument to make sure the columns are separated with whitespace. If you still want to adjust the coordinates, you can use the alter_state command in PyMOL. alter_state 1, all, (x,y,z)=(x+100,y+100,z+100)

Re: [PyMOL] Weird behavior of MacPyMOL

2012-08-30 Thread Jason Vertrees
Hi Mark, Thanks for the note. We've recorded the bug and will look into it. Cheers, -- Jason On Wed, Aug 29, 2012 at 10:58 PM, Mark Saper sa...@umich.edu wrote: Jason et al., I've noticed some strange behavior launching MacPyMOL. I'm running v 1.5.0.4 on OSX 10.8.1, but I don't think the