hello,
I'm running MacPyMol 0.99. I typically open pymol from the terminal (
terminal.app) using the "open" command.
> open test.pdb
I have .pdb files set to open with MacPyMol, so graphicConverter doesn't
open when I do this. The problem I have when doing this is that when
entering the "pwd"
Here's an example script that scratch-builds such an animation. Note
that the "rotate" command seems broken in terms of the selections it
currently accepts -- selection macros don't currently work, so you'll
need to write them out long-hand as I have done below.
# create a 4 state molecule
fragm
Peter,
PyMOL does read the alpha, but it doesn't support compositition with the
software at present, so there is no practical use for this capability.
set show_alpha_checker
load transparent.png
Will demonstrate that the alpha is read by adding a checker pattern to
the background. It sounds, yo
Marc,
Not exactly, but you can get pretty close with something like this:
load protA.pdb
load protB.pdb
select siteA_res, byres (((protA & donors) within 3.45 of (protB &
acceptors)) or ((protA & acceptors) within 3.45 of (protB & donors)))
select siteB_res, byres (((protB & donors) within 3.45
Hi all,
I noticed today that when reading a png file using load_png, the alpha
channel does not appear to be respected (regions of the png that should be
transparent are not transparent but show up as white).
Does anyone know if this by design, a bug, or something I'm doing
incorrectly setting my
Dear pymol users,
I'm struggling to figure out how to create an animation of an angle
bending vibration
with pymol, like this one
http://www.ch.embnet.org/MD_tutorial/Images/Part2/a.gif
My question is how do I correctly set the origin and axis so that I
could use the rotate command
to rotate
hello,
is there a way to only select residues that are involved in polar contacts?
thanks,
marc
