Hi Thomas:
thanks a lot for helpful advice.
HOwever, I got something new warnings:
No module named cPluginManager
Unable to initialize plugin 'xPyder' (pmg_tk.startup.xPyder).
No module named backend_wxagg
Unable to initialize plugin 'mtsslPlotter' (pmg_tk.startup.mtsslPlotter).
I google it, an
Hi Albert,
These messages come from third-party plugins that you have installed, see:
http://pymolwiki.org/index.php/MtsslDock
http://pymolwiki.org/index.php/MtsslTrilaterate
Cheers,
Thomas
On 18 Nov 2015, at 17:08, Albert wrote:
> Hello:
>
> I've installed the open source code version pymo
Hello:
I've installed the open source code version pymol 1.8 in my Linux OS.
However, when I start pymol, it always showed the following messages:
No module named tkintertable.Tables
Unable to initialize plugin 'mtsslDockGui' (pmg_tk.startup.mtsslDockGui).
No module named wx
Unable to initializ
Greetings,
We are happy to announce the release of PyMOL v1.8.0! Official PyMOL sponsors
can download ready-to-use installers from http://pymol.org/download . The
open-source code has been pushed to sourceforge svn (revision 4142). This
release finalizes our mmCIF support roadmap.
Important:
clearly shouldn’t write e-mails before having my morning coffee. Those %
symbols should have been pounds, I was aiming to make comments
As an example:
fetch 1acb, prot, async=0
stored.y=[]
iterate_state 1, prot, stored.y.append(y)
alter prot, b=stored.y.pop(0)
spectrum b
On Nov 18, 2015, at
Dear David,
I am unfamiliar with the pymol scripts so I do not understands where your
scripts end at each line. Can we write this way,
stored.y=[]
iterate_state 1, prot, stored.y.append(y)
alter prot, b=stored.y.pop(0)
which means those from % in your scripts will be not used in each line fo
If you have access to the incentive version, I would recommend looking at the
new properties capabilities in Pymol. The distances can be nicely encoded in a
property and rendered with spectrum w/o having to resort to messing with other
properties like B-factors. I believe the docs at Schrodinger
I forgot:
spectrum b
at the end.
On Wed, Nov 18, 2015 at 8:11 AM, David Hall wrote:
> Assuming you are ok with overwriting the B-factors
>
>
> stored.y=[]
> iterate_state 1, prot, stored.y.append(y) % prot here should be replaced
> with your pymol object name
> alter prot, b=stored.y.pop(0)
Assuming you are ok with overwriting the B-factors
stored.y=[]
iterate_state 1, prot, stored.y.append(y) % prot here should be replaced
with your pymol object name
alter prot, b=stored.y.pop(0) % again, replace prot with your pymol object
name
On Wed, Nov 18, 2015 at 7:49 AM, Smith Liu wrote
Dear All,
Is any way we can colour the molecule by pymol based on the y values in the z y
z coordinates, so that we can view easily the residues (or atoms) with
equivalent position in the primary sequence but has a y-axis shift in the 3-D
structure?
Smith
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