Hi, Thank you for the suggestion. I have installed the headless version and now it is working. I tried to color the surface based on b-factor using the following commnad "rangecolor bfactor key 2 blue 30 red 50 yellow" it is showing the following error "No module named Togl" I referred in internet and it seems this module is removed automatically during updation. Any idea how to solve this problem? Thank you On Fri, May 11, 2018 at 6:31 PM, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
This line from the “primer” that Elaine mentioned in her later message covers the problem you’re having:
Note that if your script creates images then you *must* start the Chimera interface unless you've downloaded the "headless" version of Chimera (see the download page <http://www.cgl.ucsf.edu/chimera/download.html>).
—Eric
Eric Pettersen UCSF Computer Graphics Lab
On May 11, 2018, at 4:25 PM, NAGARAJAN <nagabioinfostar@gmail.com> wrote:
Hi,
Thanks for the quick reply. I have previous experience in using Chimera GUI but not in nogui.
The main thing that I dont know is to use those commands in nogui mode.
For example: for saving image, I have used "runCommand("copy str.png") . but it is now working
Is there any link to get the informations to use commands in nogui mode
Thank you
On Fri, May 11, 2018 at 6:19 PM, Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hi, I guess you will be using commands. Here are commands for your steps 1. open 2. surface 3. color 4, copy Of course, you will have to include more things in those commands, various options, residue numbers, filenames etc. that you should test in the GUI first to make sure they do what you want. See also the list of commands for anything else you might want to do like rotate (turn) translate (move) zoom (scale) … and click on the link to see each command’s help with information about the command syntax and possible options. <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/framecommand.html>
See also: getting started with commands <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/ getting_started.html>
tips for making nice images <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/print.html#tips>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On May 11, 2018, at 4:09 PM, NAGARAJAN <nagabioinfostar@gmail.com> wrote:
Hi all, I have to use chimera --nogui and do the following
1. load a structure 2. make Surface representation 3. Color surface of selected residues with a selected color 4. save image
Any idea how to do the 4 steps in chimera --nogui? Thank you
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