[PyMOL] Combine two objects in PyMOL

2011-09-16 Thread Андрей Гончар
Hello! Is there a way to combine two objects together? Not just molecules but a molecule and CGO object, for examlple? -- Андрей Гончар -- BlackBerryreg; DevCon Americas, Oct. 18-20, San Francisco, CA

[PyMOL] regarding the dssp plugins

2011-09-16 Thread lina
Hi, a quick question, how can update the ss for all states, not check one by one, and run dssp and update ... Thanks for any advice, -- Best Regards, lina -- BlackBerryreg; DevCon Americas, Oct. 18-20, San

Re: [PyMOL] Combine two objects in PyMOL

2011-09-16 Thread lina
On Fri, Sep 16, 2011 at 5:49 PM, Андрей Гончар gontc...@gmail.com wrote: Hello! Is there a way to combine two objects together? Not just molecules but a molecule and CGO object, for examlple? First, I don't understand well what the CGO object means? you may wanna try: File -- save

Re: [PyMOL] regarding the dssp plugins

2011-09-16 Thread Thomas Holder
Hi Lina, as far as I know the secondary structure atom property is not state specific, so you cannot assign per state. But you can split states to individual objects. The DSSP plugin (I guess you are talking about http://www.pymolwiki.org/index.php/DSSP) however does not deal well with

Re: [PyMOL] regarding the dssp plugins

2011-09-16 Thread lina
On Sat, Sep 17, 2011 at 1:01 AM, Thomas Holder spel...@users.sourceforge.net wrote: Hi Lina, Hi Thomas, Thanks for your answering. as far as I know the secondary structure atom property is not state specific, so you cannot assign per state. But you can split states to individual

Re: [PyMOL] Combine two objects in PyMOL

2011-09-16 Thread Андрей Гончар
CGO objects are pymol graphical primitives like lines, spheres etc. http://pymol.sourceforge.net/newman/user/S0500cgo.html For example we have load some molecule into pymol and after that we have draw a cylinder between two atoms of this molecule. Is there a way to merge these two objects

Re: [PyMOL] Combine two objects in PyMOL

2011-09-16 Thread Jason Vertrees
Hi, You cannot combine CGOs like you can molecular objects. You'll need to either combine the CGO code that created those objects or 'group' (http://www.pymolwiki.org/index.php/Group) them together. Cheers, -- Jason On Fri, Sep 16, 2011 at 5:49 AM, Андрей Гончар gontc...@gmail.com wrote:

Re: [PyMOL] regarding the dssp plugins

2011-09-16 Thread lina
On Sat, Sep 17, 2011 at 4:03 AM, Thomas Holder spel...@users.sourceforge.net wrote: Hi Lina, I can also offer you my own dssp script which works with multiple objects, see attachment. It provides the PyMOL commands dssp and stride. Check help dssp. Thanks, I tried, PyMOLdssp all,