Hi Yotam,
I'm sorry but this is too complected. Currently, I can't afford the time
to learn another scripting languish. Consider gnuplot script files,
which are simply a list of gnuplot commands.
PyMOL understands two languages. The PyMOL language is indeed similar
to gnuplot commands,
You have to make .pml file and put the python commands inside pymol
blocks.
it's python blocks, see:
http://pymolwiki.org/index.php/Python
... do I need to put those code in another .py file?
That's also possible, yes.
Cheers,
Thomas
--
Thomas Holder
MPI for Developmental Biology
Hi Shukun,
why and how did the matrix_copy command fail? If you swap step (2) and
(3) everything should be fine. Try this:
fetch 2xwu 2x19, async=0
as ribbon
symexp mates, 2x19, 2x19, 6.0, segi=1
align /2x19//B, /2xwu//B
matrix_copy 2x19, mates*
By the way, the segi=1 argument of the symexp
Great, thank you.
On Mon, Sep 12, 2011 at 10:05 AM, Thomas Holder
spel...@users.sourceforge.net wrote:
Hi Yotam,
I'm sorry but this is too complected. Currently, I can't afford the time
to learn another scripting languish. Consider gnuplot script files, which
are simply a list of
Greetings,
One chance encounter at ACS couple weeks ago turned into a multi-day
discussion about using the new volume visualization for presenting
field data. Leroy Laverman from UCSB now has some example movies
showing how the electrostatic field extends beyond the molecular
surface and how the
Dear List
When I try to save an object as a PDB (after editing it slightly with
the PyMOL edit mode, i.e. adjusting a dihedral angle),
the Save Molecule dialog asks to save all, global or objects
current state. When saving with the last two, I get no coordinates in
the generated file only an
If you are more comfortable with PyMOL commands, use a .pml file (somewhat
like the gnuplot script you mentioned).
If you prefer Python, use a .py file, and import the necessary modules
(pymol, cmd from pymol, etc.). You can find working Python scripts that
call pymol in many places.
To color
Hi Martin,
When I try to save an object as a PDB (after editing it slightly with
the PyMOL edit mode, i.e. adjusting a dihedral angle),
the Save Molecule dialog asks to save all, global or objects
current state. When saving with the last two, I get no coordinates in
the generated file only