Dear Kush, Firstly I should say that this Autodock Vina tool in Chimera is not recommended for most research purposes, see the bottom part of the gray box on the help page for this tool: <https://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/vina/vina.html> Secondly, it requires downloading and installing the actual Autodock Vina program yourself, which is also explained on the help page linked above, in the top part of the gray box. Thirdly, I can only guess that the output location that you specified is somewhere you do not have permission to write files. You would have to specify a different output location (different folder on the system) where you do have permission to write files. Maybe you only entered a file name which would put it at the very top directory of the system, instead should be somewhere in your own folders, e.g. /Users/yourname/Desktop/outputfilename I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Jan 4, 2024, at 4:28 AM, Kush Unadkat via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:
Greetings
I am a student and I just got a new Mac and I am having a difficult time using AutoDock Vina in Chimera on my Mac. When working with two proteins (.mol2) format, I use AutoDock Vina in tools, input the required values and describe the path to “vina” using the browse button but instead of getting a pop up with the docking possibilities, I get an error like this: [Errno 30] Read-only file system: ‘docking.receptor.pdb’ I tried to look into the problem and if I can understand this correctly, I has something to do with Mac not allowing users to Write on the disk but I’m not sure.
Can you please tell me what I’m doing wrong or how I can solve this issue?
I am currently working on a project and I have a deadline so it is really important that I find a solution soon.
Thank you. Your assistance is really valuable to me.