[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:
.. and general description of viewing sphere files in Chimera:

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 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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