Thanks Elaine. I have also found a web-server that runs Autodock Vina called Webina that I'm trialling. It creates an output file with extension *.pdbqt, but I can't work out how to open that in Chimera. Should it be possible? It asks me to select what type of file it is from an extensive list, but I don't see anything there that corresponds to Vina output. Any ideas? kind regards, Kate <http://researchers.adelaide.edu.au/profile/kate.wegener> ________________________________ From: Elaine Meng <meng@cgl.ucsf.edu> Sent: Tuesday, 28 April 2020 12:21 AM To: Kate Wegener <kate.wegener@adelaide.edu.au> Cc: chimera-users@cgl.ucsf.edu <chimera-users@cgl.ucsf.edu> Subject: Re: [Chimera-users] Autodock Vina Hi Kate, Sorry, there are no plans on our part. Autodock Vina (and many other docking programs, DOCK etc.) are available for download and installation for running directly. <http://vina.scripps.edu/> <http://dock.compbio.ucsf.edu/index.html> Or if you wish to avoid installing any docking program yourself, there are at least a few docking web servers you could also run directly (independent of Chimera). I can't make a recommendation, but to mention a few: Dock Blaster, SwissDock, MTiAutoDock ... <http://blaster.docking.org/> <http://www.swissdock.ch/> <https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::MTiAutoDo...> I hope this helps, ELaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 26, 2020, at 11:48 PM, Kate Wegener <kate.wegener@adelaide.edu.au> wrote:
I'm new to this list, but I saw in the archives that there was a thread on the shutdown of the Opal2 server. I wondered if there were any plans to make Autodock Vina available on alternate servers? Or if anyone knows of another way to access an Autodock Vina server? I have been using this server in a class for the past 5 or 6 years, so I'm keen to find an alternative option. kind regards, Kate