Cameron,
This is an indication that PyMOL is experiencing OpenGL errors. For
people with this problem, please email me your graphics hardware and driver
information. Clearly, there are some drivers which don't like the new
version...
In the meantime, to alleviate this issue, you can iss
Tony,
This isn't possible with normal objects, but it is with discrete ones.
Normal states are efficient because they only have coordinate information,
not atomic properties such as color. With "discrete" objects, each state
has its own atom information.
Assuming that you're using version 0.95 a
I have trouble installing PyMOL using pymol-0_95-bin-win32-py23.zip. Here
is the message I got.
The installer is unable to locate Python. Python must be installed before
PyMOL. Do you wish to abort?
I have Python2.3.2 installed, and there was no problem installing pymol_0.93
with this version
Todd,
Try MacPyMOL for the full PYMOL effect. http://delsci.com/macpymol
There is also a new command in the 0.95 series:
split_states object-name
which will spread a PDB "biological unit" (or any multi-state object --
including SD files) over a series of independent objects. This makes it
Hi PyMOLers,
I just downloaded and tried-out the new v0.95 -- very nice!
(particularly the label-handling)...
Now I'm wondering -- has anyone seen the following OpenGL errors with
this new version:
OpenGL-Error: Where? During Rendering: invalid operation
This occurs when literally *any* op
David,
There isn't currently a programmatic way of doing this, but it wouldn't be
too hard to make one. I'll put onto the todo list support for commands
like: ray 1024; ray width=800; height=600; where the second axis is
calculated.
Note that we're currently missing an API function for getting t
Hi,
Regarding the use of the ray command, is there a way to automatically set
either the x or y value to maintain the same aspect ratio as displayed in the
window? For that matter, how do you determine the number of x and y points
displayed (other than making a bitmap and loading that into anot
Mado,
PyMOL's current labeling is inflexible. The only way to change position
automatically is to insert spaces at the front of the label:
label (name ca)," %s-%s"%(resn,resi)
The font selections are limited:
normal: set label_font_id, 0
bigger: set label_font_id, 1
smaller: set label_font_i
Mohammed,
ray width, height
png filename.png
for example, for a 5x4 figure at 300 dpi:
ray 1600,1200
png hires.png
(or use Save image... from the File menu after the ray command)
Cheers,
Warren
> -Original Message-
> From: pymol-users-ad...@list
Dear pymol usres
I want to increase the resolution of the figure but how? Save file is png
and resolution is very poor and print quality is not good. I also make CA
model by xfit and save file is rasted3d and it is opened by pymol and save
as png but figure is not good quality for its low reso
OK, I think I might have figured the label thing out.
What I don't get is how to change color/font/size etc of the label, and
if there is command corresponding to LABELOFFSET in Molscript.
Cheers,
Mads Gabrielsen
Original Message
Subject:labels
Date: Mon, 05 Apr 20
I have just installed the new release of PyMol and was particularly
pleased that labels can now be rendered. Then it occured to me that I
actually don't know how to label a residue Tyr84 (or whatever) and have
the label positioned next to the residue.
Any hints would be appreciated.
Also, am I
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