[Chimera-users] Web Access Data

Elaine Meng meng at cgl.ucsf.edu
Tue Mar 3 09:10:45 PST 2009

Hi Thiru,
The session file is python (*.py) ... you cannot just rename it as  
*.chimerax.  Instead you would make a chimerax file that gives the  
names/locations of any files you want to open in Chimera, such as the  
python session file, and can include various Chimera commands.  If  
all you want to do is open the session, the chimerax file will be  
very simple.

For example, these 6 lines of text are a chimerax file from the  
Structure-Function Linkage Database (SFLD):

<?xml version="1.0"?>
   <ChimeraPuppet type="std_webdata">
   <file  name="session.py" format="text" loc="http:// 

Your web page would link to the chimerax file.  Then when the  
chimerax file is opened by Chimera, Chimera will get the session file  
named inside.

The page at the SFLD that has this link is
The chimerax file is linked to the large "Active Site" image.

You can test your chimerax file without using the web just by opening  
it in Chimera.  Then if it works, you can link it to a web page, but  
there is one more step:

If you are using a cgi-bin script to create the chimerax files on the  
fly, the cgi-bin script must specify the Content-type header as  
application/x-chimerax.  If you just have pre-made chimerax files,  
your webmaster needs to change the web server settings so that it  
sends this information along with the file.

The chimerax format is described here:

I hope this helps,
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Mar 2, 2009, at 6:46 PM, Thiruvarangan Ramaraj wrote:

> Hello All,
> I created a session and saved it under .chimerax extension. I have  
> a link
> to this session on a web page. When I click on this link I wanted the
> session to open directly using the chimera program.
> http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/webdata/ 
> webdata.html#webdata
> I tried to follow the instructions given in the above link, still I  
> am unsuccessful in figuring it out.
> Any suggestions/ideas would be greatly appreciated.
> Thank You
> Thiru
> _______________________________________________
> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
> http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users

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