[Chimera-users] ViewDock

Elaine Meng meng at cgl.ucsf.edu
Sat Jun 27 08:16:54 PDT 2015


Dear Leila,
The error message is for when you are saving multiple files.  I assume you want to save a single file with your receptor and ligand, so you need to change to “Save multiple models in” to “a single file”:
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#pdb>

You could also use the alias from my previous reply
<http://plato.cgl.ucsf.edu/pipermail/chimera-users/2015-June/011153.html>

…for example, if you had already entered that “alias” command, which creates the new command “savecplx”, you could then enter

savecplx 3

If you were using the PDB save dialog to save multiple models to multiple files, you would actually have to include “$name” or “$number” in the specified name, not some other things.  For example, NOT $target.pdb but $name.pdb.

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 Jun 27, 2015, at 5:02 AM, leila karami <karami.leila1 at gmail.com> wrote:

> Dear all
> 
> Now, I want to save 1 pdb file containing target + one of poses of ligand for example, number 3.
> 
> For this aim, what to do?
> 
> I did following steps, but I did not succeed:
> 
> file ---> save pdb ... 
> In save models section, I selected both of target.pdb (#0) and (#1.3)
> In file name section, I wrote complex.pdb and then save.
> 
> I encountered with error (see the below link):
> 
> https://www.dropbox.com/s/bdkq1x1db96amhi/chimera%20error.png?dl=0
> 
> I tested other names such as $target.pdb and $1.3.pdb.
> 
> Unfortunately, I encountered with the same error.
> 
> Best regards,




More information about the Chimera-users mailing list