Hi
I am having some issues with the isomesh plot in PyMol. The map at same sigma
level in Coot and PyMol varies by a certain factor. From google search, I
notice that I am not the only one had such problem and following was the
relevant post some years ago. Now, how do I mimic coot in case I wa
Dear PyMOL users,
I need to visualize sp3-hybridized electron cloud with lone pair of electrons to
make figure explaining the chemical mechanism of the reaction. Does anyone know
if it is possible to accomplish with PyMOL???
Any comments or suggestions would be valuable!
Thanks a lot in advance!
Hi All,
I'm trying to change a stretch of a polypeptide chain (residues 3-9) into a
helix. I use the alter command:
alter 3-9/, ss='H'
But when I try to see the updated structure in cartoon, the structure doesn't
appear like a helix. It looks like a distorted helix. How do I correct it?
Th
When executing setup.sh to create the pymol executable link the
following error is encountered:
start of snip
Creating "./pymol" startup script with
PYMOL_PATH=/usr/local/xtal/pymol-1.6.0.0
If you n
Thomas Holder wrote, On 06/13/13 18:43:
> Find a fixed setup.sh attached. I'll fix this ASAP in SVN.
my mistake, doesn't affect open-source, no fix in SVN, sorry ;)
--
Thomas Holder
PyMOL Developer
Schrödinger Contractor
--
Hi Roger,
thanks for the report. Apparently I used some bash-only syntax in
setup.sh, but didn't change the shebang from #!/bin/sh to #!/bin/bash.
Since Ubuntu uses the "dash" shell by default, this fails :(
Find a fixed setup.sh attached. I'll fix this ASAP in SVN.
Cheers,
Thomas
Roger Rowle
I missed it! Sorry
cheers,
Gianluigi
Da: Thomas Holder
A: Gianluigi Caltabiano
Cc: pymol-users
Inviato: Giovedì 13 Giugno 2013 10:10
Oggetto: Re: [PyMOL] PyMOL 1.6 final release
Hi Gianluigi,
since 1.5.0.6 PyMOL has an integrated Plugin Manager which
Hi Gianluigi,
since 1.5.0.6 PyMOL has an integrated Plugin Manager which supersedes
and is incompatible with the script that you are using.
Go to "Plugin > Plugin Manager > Settings" and add "/MYPATH/Pymol" to
the plugin override search path.
Cheers,
Thomas
Gianluigi Caltabiano wrote, On 06/1
Hi all,
I am experiencing a problem with the X11 version of 1.6 (MAC user).
The new version is not auto loading the plugins in the repository directory,
which worked fine to me until yesterday, (pymol 1.5.3)
When opening HybridPymol no error messages are displayed, but if I manually
give the
