fMRIPrep-docker command

I’m not sure if this is what you mean:

C:\Users\rubin\fs-license

You should have a license.txt from FreeSurfer (License - Free Surfer Wiki). Wherever you save that, you should point to it with --fs-license-file.

Thank you all for your help and explanations @effigies, @jsein, and @Steven

I finally figured what the problem was and why when I typed “ls” in Ubuntu (20.04), it generated a message saying “No such file or directory”.

I’m using Windows, running the fMRIPrep-docker command on Ubuntu and needed to mount file systems in Linux for this to be identified.

Here’s my final code and hope it helps anyone who is or will be facing a similar problem or who reaches the end of this thread:

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