[Chimera-users] Chimera Settings

[Nathan Randall]

Hi Elaine,

Do you have a python script that loops through bunch of files and display chimera output that I can run from a terminal? If so, do I need to install the linux version of chimera?

And also, I was not able to set the following preset as default: 
Presets —> Select Publication 1

According your previous email reply I was able to set the background color to white. But I could not reproduce the silhouettes and depth-cueing effect.

Thank you,
Nuwan

> On May 18, 2018, at 3:49 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> Hi Nuwan,
> If you are really done viewing the molecule, you should close it  (e.g. command: close #0) or close the session (e.g. menu: File… Close Session).  You do not need to quit from Chimera, if that’s what you meant.
> 
> You could just hide the molecule instead of closing it, but that would be the same amount of work.  The only reason to hide it is if you want to work with multiple structures together but temporarily hide one or the other.  You can hide/show open models with Model Panel (open from Favorites menu, use “S” checkbox).  You can also use the Model Panel to close a specific model.
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/modelpanel.html>
> 
> You may want to try the “getting started” tutorial to become more familiar with Chimera; it explains stuff like this.
> <http://www.rbvi.ucsf.edu/Outreach/Tutorials/GettingStarted.html>
> 
> 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 18, 2018, at 9:57 AM, Nuwan DeSilva <nathan2017store at gmail.com> wrote:
>> 
>> Hi Elaine,
>> 
>> I have another question.
>> 
>> When I open a file and after done viewing the file (lets say molecule 1), I want to open another file (lets say molecule 2). Each time I have to close the sessions and open the molecule 2. Otherwise molecule 2 will display on top of the molecule 1. How can I set  that display only the new molecule (molecule 2)?
>> 
>> Thank you,
>> Nuwan
> 
> 
> 
> 
> 
>