Hi Joel,
This is unfortunately an oversight on my part. This fix unfortunately never
made its way to a patched version. I will make sure it does for the next
patch. In the meantime, if you ever do come across this issue, the
workaround is to disable undo from the Edit menu.
Best,
Jarrett J
On Tu
Hi all,
I tried to help Anna with her issue around the colour bar (which seemed
unusual) only to find that I cannot generate the electrostatic maps at all on 2
different PCs running windows (10 I believe).
The error is Pop-error: invalid source selection name ‘assign_tmp1’
Running 2.5.1
Joel
;
> >Mark,
> >
> >Should be fixed now (in rev 3720).
> >
> >Cheers,
> >Wawrren
>
>
> > -Original Message-
> > From: Mark Wehner [mailto:mark.weh...@ru...]
> > Sent: Monday, May 11, 2009 12:11 PM
> > To: pymol-us...@li...
&
to:denis.ch...@cbs.cnrs.fr]
> Sent: Monday, May 18, 2009 9:10 AM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] vacuum electrostatics
>
> Dear users
>
> I'm trying to compare the electrostatic charge surface of my protein
> with and without ligand, by using the c
Dear users
I'm trying to compare the electrostatic charge surface of my protein
with and without ligand, by using the command "generate vacuum
electrostatics".
that's works fine for the protein without ATP but that doesn't work with
the ligand.The surface obtaine doesn't take account the ligand
Mark,
Should be fixed now (in rev 3720).
Cheers,
Wawrren
> -Original Message-
> From: Mark Wehner [mailto:mark.weh...@rub.de]
> Sent: Monday, May 11, 2009 12:11 PM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] Vacuum electrostatics
>
> Hi everyo
Hi everyone,
in the newer version of pymol I realized it is not possible to generate vacuum
electrostatics, there's an error while assigning the formal charges. The error
message is:
Alter-Error: Aborting on error. Assignment may be incomplete.
File "", line 1
formal_charge=0;flags=flags&
Hi all,
I had a problem calculating electrostatic surfaces for my pdb -
identical to the problem detailed
below:
http://sourceforge.net/mailarchive/message.php?msg_id=36854260
In short, an electrostatic surface with green/blue/red patches that
changes according to the
colour of the underlyin
Shawn Milano wrote:
Hi,
I want to show an electrostatic surface of my protein for publication. In
Pymol, I believe I can use generate-vacuum electrostatics. However, I am not
quite sure what the difference is between absolute and relative protein
surface potential. Could you help me with thi
Hi Shawn,
As you can see when you select the generate electrostatic surface
within PyMol - Warren has stated that it is "unvalidated experimental
code" and the results should be viewed with skepticism. If you want
publishable electrostatics calculated using more realistic estimates of
dielect
Hi,
I want to show an electrostatic surface of my protein for publication. In
Pymol, I believe I can use generate-vacuum electrostatics. However, I am not
quite sure what the difference is between absolute and relative protein
surface potential. Could you help me with this? Second, I have a qu
o:war...@delsci.com
> -Original Message-
> From: pymol-users-ad...@lists.sourceforge.net
> [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of Eiza Yu
> Sent: Tuesday, January 25, 2005 3:39 PM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] va
hi!
Is there a way to (qualitatively) visualize electrostatics of nucleic acids
with Pymol? I know this can be done for proteins already. Thanks.
Eiza Yu
graduate student
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