Jhon,
This sounds like a typo in your bashrc file, wherein code is being
accidentally run instead of being used to define a path or alias, etc.
Another possibility could be that the Terminal application has somehow
stored some kind of state that is being restored on launch (this used to
happen
Hey once again everyone,
This is along the lines as my previous questions... When I do:
set ray_trace_mode, 2;
It produces a 'black and white image', however this really is of the outlines
of the objects in the model. Is there a way I can manually make certain
objects into this outline r
Hi,
How do I get proper (HN,HA, HE1, etc) hydrogen naming when using h_add
(instead of H01, H02, ...)?
Worst case I can build them in Xplor/CNS; second worst would be if there
is a uniform rule per residue that I could write a script to convert on
a residue type basis.
Thanks,
Dave
--
Dear All,
Does anyone know how to select residues with negative sequence numbers
in Pymol?
I have a protein molecule with two residues with negative sequence
numbers (-2 and -1). When I issue the command:
cmd.select('temp', 'resi -2 and name CA')
Pymol selects the alpha carbons of residu
phenix.reduce is an option
-Original Message-
From: pymol-users-boun...@lists.sourceforge.net
[mailto:pymol-users-boun...@lists.sourceforge.net]on Behalf Of David A. Horita
Sent: Thursday, August 21, 2008 3:32 PM
To: pymol-users@lists.sourceforge.net
Subject: [PyMOL] hydrogen naming
Hi,
Buz,
This is something PyMOL didn't handle well until recently, but I think you
can now prefix the minus sign with a backslash in order to force PyMOL to
interpret the value numerically instead of as a range.
# create some negative residue identifiers
load $TUT/1hpv.pdb
alter chain A, resi=int(r
Hi Warren,
Thanks! That did the trick.
All the best,
--Buz
On Aug 21, 2008, at 4:25 PM, DeLano Scientific wrote:
Buz,
This is something PyMOL didn't handle well until recently, but I
think you
can now prefix the minus sign with a backslash in order to force
PyMOL to
interpret the val
