How to Generate PDB complex from AutoDock Vina Results

[@israelekoro8617]

Another banger lecture.
You are simply the best

[@Bioinformaticsinsights]

Thanks mate for liking my stuff

[@wasifullahdawar6962]

Great video Sir g but what is the -1 0 1'2 UpTo 9 at right side of state when we save the complex one is selection and below is state

[@Bioinformaticsinsights]

These are Pymol states, and gives you the choice to save your favorite scene

[@wasifullahdawar6962]

@@Bioinformaticsinsights Ok Thank You Sir

[@potatosalad535]

Great lecture!
I only have an issue with the command --log (outputfile), it gives this :
Command line parse error: unrecognised option '--log'
anyideas?

[@Bioinformaticsinsights]

Could you please paste your script here. I assum the error come because you did not write any name for the --log file.

[@potatosalad535]

@@Bioinformaticsinsights vina_1.2.5_win.exe --config conf.txt --out results.pdbqt --log logres.txt --cpu 4 --num_modes 10
I think I put the output file (logres.txt)
But I found a solution tho, you simply type >res.log as an output log file and it works. The problem is you can't see docking in action, you only see the files in your directory when it is done

[@potatosalad535]

@@Bioinformaticsinsights vina_1.2.5_win.exe --config conf.txt --out results.pdbqt --log logres.txt --cpu 4 --num_modes 10
I think I identified the output file (logrest.txt)
I found a solution tho, I wrote >filename.log and it worked but the problem was, you can't see the docking in action. You know it is done from the files in your directory

[@potatosalad535]

@@Bioinformaticsinsights vina_1.2.5_win.exe --config conf.txt --out results.pdbqt --out logres.txt --cpu 4 --num_modes 10
I think I identified it (logres.txt)
I found a solution tho: by typing >filename.log this will create a log file in your directory but unfortunately I wasn't able to see the docking process in action, I only saw the output files in the directory

[@Bioinformaticsinsights]

Great, and good to know that you have trouble shoot the problem.