[Chimera-users] python script running OUTSIDE chimera possible?
gregc at cgl.ucsf.edu
Thu Apr 18 14:16:31 PDT 2013
In some cases, it is possible to do what you want, but in general it is
not possible because Chimera has its own versions of system libraries
that it needs to work correctly -- so it depends on how different
Chimera's version of the libraries are from the system ones, and that
changes from release to release of Chimera and which system Chimera is
So you are much better off using 'chimera --nogui --silent --script
...', or starting up chimera and opening the .py file.
In the Chimera Programmer's FAQ,
there is a section on how to pass arguments to scripts that shows how to
encapsulate 'chimera --nogui --silent --script' in a Linux/Mac OS X
shell script. I will add a section to the Programmer's FAQ about how
to install other Python packages into chimera.
And if you still would still like the gory details, look at the chimera
startup script and how it manipulates environment variables. There is
some additional (some redundant) environment manipulation in
CHIMERA/share/__main__.py, and then, unlike __main__.py, you would call
chimeraInit.init(, eventloop=False) before invoking any chimera packages.
On 04/17/2013 04:08 PM, frederick lee wrote:
> hello chimera experts,
> as far as i know, python scripting for chimera is done within
> the context of chimera like
> chimera --nogui myscript.py parameters ...
> is it possible to run myscript.py without the need of the
> chimera executable and use import statements of some sort to
> access the chimera module(s) like
> python myscript.py parameters
> best regards,
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the Chimera-users