I am new to Docker and fmriprep. I have read the documentation and am running it on a simple data set. I have encountered some problems with modules not being found. This leads me to think I have done something wrong. I installed fmriprep-docker with pip on my Mac OS 10.12.
$ pip install --user --upgrade fmriprep-docker
The installation worked fine. The run command as stated in the instructions did not work.
$ fmriprep-docker /path/to/data/dir /path/to/output/dir participant
The command wasn't found. This may make sense sinceI didn't make any changes to my environment after the pip install. Instead I had to find where pip installed fmriprep. There I found the python file fmriprep_docker.py
I then ran the command
/path/to/fmriprep/fmriprep-docker.py /path/to/data/dir /path/to/output/dir participant
and the command ran and started chugging away at my data. I am concerned that the slight difference between fmriprep_docker and fmriprep_docker.py is causing my problems that I am experiencing.
Once I know I am correctly running fmriprep_docker I will send additional information about my errors.
Thanks for your help,