[Chimera-users] Error opening file

Elaine Meng meng at cgl.ucsf.edu
Fri Jul 10 10:53:33 PDT 2015


Hello Sneha,
Well, according to the error message, the file has a nonstandard header!  In other words, it may be a problem with the file format.

First make sure you actually downloaded the file as plain text.  Otherwise it might have some HTML tags added to it.  Then I would just look at the file with a text editor and try deleting parts that don’t look like part of the standard format.

There’s a small example file here:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/12123.sph>
.. and general description of viewing sphere files in Chimera:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/sphgen.html>

To report a problem with a file, you should actually attach that file, otherwise we are just guessing.  You could use “Help… Report a Bug” in the Chimera menu and attach a file and include your email address if you want an answer.  However, as I mentioned above, this might not be a bug if the file format is simply wrong.

I hope this helps,
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 Jul 10, 2015, at 10:39 AM, Sneha Poondru <snehapoondru at gmail.com> wrote:

> Hello! 
> 
> I’m trying to prepare a receptor for dock6, so I downloaded a file (1tvb_.all.sph)  from our cluster onto my desktop. However, when I click to open it, I keep getting this error message from Chimera: 
> 
> non-standard sph header
> Error while processing /Users/SnehaPoondru/Desktop/Project/1tvb_.all.sph:
> cannot open file "/Users/SnehaPoondru/Desktop/Project/1tvb_.all.sph": syntax error, line 1832
> 
> Any help is appreciated!
> Thanks!
> ~Sneha




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