[Chimera-users] in the docking process this message appear and does not continue, opal:vina_1.1.2 unavailable what i should do

[Elaine Meng]

The last half of my previous message already suggested one possibility for using a different web server to run the calculation and then opening the results in the Chimera ViewDock tool, which allows checking for H-bonds etc.

If that doesn't work, you will have to figure out something on your own.

Elaine

> On Apr 30, 2020, at 10:44 AM, Ahmed Tawfeek <ahmed_tawfeek83 at yahoo.com> wrote:
> 
> Dear Elaine,
> Thank you very much Elaine,
> but i could get the interactions and bonds 
> could you help me or guide me for another option
> 
> waiting your reply
> ahmed
> On Thursday, April 30, 2020, 05:11:15 PM GMT+2, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> 
> Sorry, the Autodock Vina web service is no longer available.
> 
> This was already discussed on the mailing list 
> 
> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2020-April/016738.html>
> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2020-April/016752.html>
> 
> and is also shown on the Help page for this tool:
> 
> <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/vina/vina.html>
> 
> Somebody on the mailing list mentioned that there is another Autodock Vina web server called Webina 
> <https://durrantlab.pitt.edu/webina/>
> 
> ...that you may be able to use directly (not in Chimera).  I have not tried it myself, but according to others, after you get the output file from Webina you may be able to open and view it with the ViewDock tool in Chimera as described in the second message below:
> 
> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2020-April/016762.html>
> <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2020-April/016764.html>
> 
> Elaine
> -----
> Elaine C. Meng, Ph.D.                      
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> 
> 
> > On Apr 30, 2020, at 6:37 AM, Ahmed Tawfeek <ahmed_tawfeek83 at yahoo.com> wrote:
> > 
> > Dear Professors and Doctors, 
> > I need the help
> > I am trying to learn the work on chimera for the purpose of checking my compounds as organic chemist but i could not continue, because at the docking stage, the autodock vina does not work and this message appear,
> > 
> > the message " opal:vina_1.1.2 unavailable"
> > 
> > what is the solution
> > 
> > Best Regards
> > 
> > Ahmed Tawfik  
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