nextflow-pipelines-docker-issues

name	nextflow-pipelines-docker-issues
description	Sub-skill of nextflow-pipelines: Docker issues (+2).
version	1.0.0
category	science
type	reference
scripts_exempt	true

Docker issues (+2)

Docker issues

Problem	Fix
Not installed	Install from https://docs.docker.com/get-docker/
Permission denied	sudo usermod -aG docker $USER then re-login
Daemon not running	sudo systemctl start docker

Nextflow issues

Problem	Fix
Not installed	curl -s https://get.nextflow.io | bash && mv nextflow ~/bin/
Version < 23.04	nextflow self-update

Java issues

Problem	Fix
Not installed / < 11	sudo apt install openjdk-11-jdk

Do not proceed until all checks pass. For HPC/Singularity, see references/troubleshooting.md.

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