Re: [PyMOL] Transformation Matrices

2012-01-02 Thread Jason Vertrees
Jacob, The easiest will be to use matrix_copy. All objects start out with their object matrix set to the identity. One you drag them around or move them through an alignment, their matrices change. You can then easily copy one object's matrix onto another object. Cheers, -- Jason On Thu, Dec 29

Re: [PyMOL] selection within object

2012-01-02 Thread Jason Vertrees
Corey, PyMOL's ability to create precise atom selections can be very useful. Please see the 'select' command (http://pymolwiki.org/index.php/Select). On that page, please be sure to see the two topics under the "See Also" heading. Those will illustrate how powerful 'select' can really be. Let me d

[PyMOL] POV-ray

2012-01-02 Thread Corey Fugate
So I have PyMOL on my windows 7 system with POV-ray 3.6. In PyMOL, I save image as a POV-ray *.inp. Then I run the *.inp with POV-ray. I don't change any setting in the *.inp file. The bmp output from POV-ray looks worse than the preview window in PyMOL. Is there something I need to change in

Re: [PyMOL] selection within object

2012-01-02 Thread Corey Fugate
select chain A and ss s worked great. I didn't know to put the 'and' there. Thanks! On Sat, Dec 31, 2011 at 7:53 PM, Takanori Nakane wrote: > Happy new year, > >  >      I have a structure of a protein composed of two monomers A and B. >  > I want to sel