[Chimera-users] Chimera startup options

[Elaine Meng]

Tim is exactly right (thanks!) -- and you do have to turn "smart initial display" to "false"  to show all atoms and bonds of subsequently opened structures.  Remember to click Save to make the settings apply to later uses of Chimera.
Best,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco



On Aug 12, 2010, at 8:29 AM, Tim Travers wrote:

> Hello John,
> 
> What I did to configure Chimera on my Linux box was to go into Favorites->Preferences.
> In the window that opens, choose New Molecules from the drop-down box Category. You
> can then play with the options there; for what you need, I guess set ribbon display off,
> atom style as ball, bond style as stick. And maybe also turn off the smart initial display.
> 
> Hope this helps,
> Tim
> 
> On Thu, Aug 12, 2010 at 11:21 AM, Beale, John <John.Beale at stlcop.edu> wrote:
> <image001.jpg>
> I have a new installation of Chimera on a Linux box. I am working with a protein/nucleic acid complex. When I start the program with “chimera file.pdb” the ribbon representation of the structure is shown. Also, a plank representation of the nucleic acid is shown.  I have to hide the ribbon and select “Actions -> Atoms/Bonds -> Show” to see the atoms. Can someone tell me how to change the startup options so that the ribbon and planks are not automatically generated and that the atoms/bonds are shown by default?
> 
>  
> Thanks!
> 
>  
> John
> 
>  
> John M. Beale, Jr., Ph.D.
> 
> Professor of Medicinal Chemistry and Pharmacognosy
> 
> Saint Louis College of Pharmacy
> 
> 4588 Parkview Place
> 
> Saint Louis, Missouri  63110
> 
> 314-446-8461
> 
> Cell: 314-315-0409
> 
> FAX: 314-446-8460
> 
> jbeale at stlcop.edu
> 
>  
> 
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