Lennart Wittkuhn lnnrtwttkhn

docker pull ghcr.io/rocker-org/verse:4.3.3
docker run --rm -ti ghcr.io/rocker-org/verse:4.3.3  bash
 
quarto create project book abook

cd abook
## I turned off PDF rendering in _quarto.yml because lots of deps
quarto render

Git Resources

Guides

https://experimentology.io/A-git

https://experimentology.io/13-management

Papers

Resources for learning version control with Git and DataLad

Guides

"Version Control" - Chapter in the Turing Way Handbook

determine the total number of jobs (pending and active) at a given moment

https://stackoverflow.com/a/68370063

squeue -u $USER -h -t pending,running -r -O "state" | uniq -c

1. Clone your fork:

git clone [email protected]:YOUR-USERNAME/YOUR-FORKED-REPO.git

2. Add remote from original repository in your forked repository:

cd into/cloned/fork-repo
git remote add upstream git://github.com/ORIGINAL-DEV-USERNAME/REPO-YOU-FORKED-FROM.git
git fetch upstream

	# create ssh key (replace with your email address):
	ssh-keygen -t ed25519 -C "[email protected]"
	# show public ssh key:
	cat ~/.ssh/id_ed25519.pub
	# copy the public key to Github

	all: clean-docker clean-spotify

	clean-docker:
	# https://stackoverflow.com/questions/39878939/docker-filling-up-storage-on-macos
	docker system prune -a --volumes

	clean-spotify:
	# https://www.alphr.com/clear-spotify-cache/
	rm -rf ~/Library/Caches/com.spotify.client/*

	image: python:3 # use a Docker container with Python 3
	before_script: # commands that should run before each job
	# here, we install all the packages needed for mkdocs, using pip
	- pip install mkdocs
	- pip install mkdocs-material
	- pip install pygments
	- pip install pymdown-extensions
	pages: # gitlab pages allows to publish static websites
	stage: deploy # tells gitlab to deploy the website
	script: # commands that are executed inside the container:

	"""Masked-ness score by source and derivative zero count ratio for images."""

	import numpy as np
	import nibabel as nb

	INPUT = "/path/to/image.nii.gz"

	# =============================================================================

	def maskedness_score(img):

	# from http://handbook.datalad.org/en/latest/basics/101-138-sharethirdparty.html
	git annex initremote keeper type=external externaltype=rclone chunk=50MiB encryption=none target=<rclone_remote_name>