scripted neurodocker

neurodocker_script.py

import neurodocker
specs = {'pkg_manager': 'apt', 'instructions': [['base', 'debian'], ['install', ['git', 'vim']]]}
dockerfile_string = neurodocker.Dockerfile(specs).render()

print(dockerfile_string)

If you're confused about how the specs dictionary should look, you can generate a JSON representation of a neurodocker command with the --json flag.

$ docker run --rm kaczmarj/neurodocker:0.4.3 generate docker \
  --base=neurodebian:stretch --pkg-manager=apt \
  --install fsl \
  --spm12 version=r7219 \
  --json
{"pkg_manager": "apt", "instructions": [["base", "neurodebian:stretch"], ["install", ["fsl"]], ["spm12", {"version": "r7219"}]]}