[Chimera-users] recent problems running Autodock Vina

[Arturo Estolano Cobián]

Hello!
Yes, after the error I was trying several times to repeat the experiment,
which could have made the problem worse.
As you said, today I tried again (after one day) and the docking completed
succesfully!
Thank you very much for your help.
Arturo Estolano Cobián

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2018-03-26 9:43 GMT-07:00 Elaine Meng <meng at cgl.ucsf.edu>:

> Hi Arturo, Simon, and Sofia,
> The message in Arturo’s question below says it is not a Chimera error, but
> a limit of the Autodock Vina web service, which is run by a different group
> (as mentioned in the help page, <http://www.rbvi.ucsf.edu/chimera/docs/
> ContributedSoftware/vina/vina.html>).
>
> We do not have direct control over this web service.  My guess from
> reading the message is that there are too many job attempts (>99) causing
> the error, so I would wait a while and then try again.  Trying again
> immediately or lots of times may make the problem worse.  However, this is
> just a guess, so if you ALWAYS get the same message, maybe there is some
> other problem.
>
> Just now I tried running an Autodock Vina job on the web service and it
> completed successfully.
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Mar 25, 2018, at 8:01 PM, Arturo Estolano Cobián <
> estolano.arturo at uabc.edu.mx> wrote:
> >
> > Dear Chimera Help Desk,
> > I have a problem while running molecular docking on Chimera.
> > After running Tools --> Surface/Binding Analysis --> AutoDock Vina, I do
> not get the results from the docking analysis.
> > I get the regular name.receptor.pdb , name.receptor.pdbqt ,
> name.ligand.pdb , name.ligand.pdbqt and name.conf  files, but the name file
> (the docking results) does not generate.
> >
> > In the Reply Log I found this, which I assume is involved in the problem:
> >
> > standard error
> > -----
> >
> > Unable to initialize environment because of error: cannot register event
> client. Only 99 event clients are allowed in the system
> > Exiting.
> > -----
> > Traceback (most recent call last):
> >   File "C:\Program Files (x86)\Chimera 1.11.2\share\chimera\tasks.py",
> line 179, in runStatusCB
> >     task.statusCBList[0]()
> >   File "C:\Program Files (x86)\Chimera 1.11.2\share\WebServices\appWebService.py",
> line 171, in statusCB
> >     self.finishCB(self.backend, fileMap)
> >   File "C:\Program Files (x86)\Chimera 1.11.2\share\vina\ws.py", line
> 179, in _wsFinish
> >     raise NonChimeraError("No data file returned from "
> > NonChimeraError: No data file returned from AutoDock Vina web service
> >
> >
> > And I can't find how to solve this and get the results from the docking
> experiments I'm doing.
> > Can you please help me solve this problem?
> > Thank you in advance for your attention.
> > Arturo Estolano Cobián
>
>
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