I put a script on the PyMOLWiki that does renumbering based connectivity:
http://pymolwiki.org/index.php/Renumber
Cheers,
Thomas
On 01/30/2012 02:52 PM, Thomas Holder wrote:
On 01/30/2012 02:24 PM, gontchar andrey wrote:
Thanks a lot!
A very useful script, but not exactly that I need...
Thanks!
2012/1/31 Thomas Holder spel...@users.sourceforge.net:
I put a script on the PyMOLWiki that does renumbering based connectivity:
http://pymolwiki.org/index.php/Renumber
Cheers,
Thomas
On 01/30/2012 02:52 PM, Thomas Holder wrote:
On 01/30/2012 02:24 PM, gontchar andrey wrote:
Hi thanks,
still it is not the same.. But thanks..
I wish Jason can reply if there is any way to get the list from the apply
command.
thanks,
Abhi
On Mon, Jan 30, 2012 at 5:53 PM, Thomas Evangelidis teva...@gmail.comwrote:
I think you can reproduce the results from apply-find-polar contacts
Hi Abhinav,
The underlying C-object for a measurement does not support
iterate/alter. This is rather silly; PyMOL should be able to tell you
what's in the object.
Please file a feature request on the open-source bug tracker and we'll
be sure to look at this ASAP.
Cheers,
-- Jason
On Tue, Jan
Gonzalo,
Just pick a bond and issue the following setting command to make colored lines:
set_bond line_color, yourColor, sele
You can also use
set_bond stick_color, yourColor, sele
for sticks.
sele should be the two bound atoms.
Cheers,
-- Jason
On Tue, Jan 31, 2012 at 1:51 PM, Gonzalo
Sorry guys, it's me again.
It worked while I was seeing the structure in lines style, but when I change
the style to cartoon, the bonds that I set dissapear.. How can I prevent it?
Thanks again, and sorry for beeing that noob.
Gonzalo
From: jason.vertr...@schrodinger.com
Date: Tue, 31 Jan
Gonzalo,
The cartoon representation is a stylized representation of the
structure using backbone atoms as guides. Setting stick_color or
line_color on a cartoon won't help -- you need to show lines or
sticks. If you need sticks/lines back just type:
show lines, sele
or
show sticks, sele
Hi PyMOLers,
I noticed some strange behaviour when I do the following:
1) Load A.pdb into MacPyMOL via pymol A.pdb2) Load a CHARMM simulation
trajectory into object A via load A.dcd, A
3) Load a completely different structure (must have different number of atoms
than A.pdb), B.pdb, into a
Hi Abhinav and Jason,
The underlying C-object for a measurement does not support
iterate/alter. This is rather silly; PyMOL should be able to tell you
what's in the object.
As an ad-hoc hack, I wrote a Python script to access internal C-object
of distance representation and convert it to atom
