Overview

A modest set of dev container Features features useful for authoring and testing Nextflow pipelines

Features

This repository contains a collection of two Features - nextflow and nf-test. Each sub-section below shows a sample devcontainer.json alongside example usage of the Feature. At present, there are no options available for the nextflow feature, so the empty object is provided after the feature ID:

nextflow

Installs Nextflow and prerequisites (Java)

{
    "image": "mcr.microsoft.com/devcontainers/base:ubuntu",
    "features": {
        "ghcr.io/robsyme/features/nextflow:1": {}
    }
}

$ nextflow -version

      N E X T F L O W
      version 22.10.4 build 5836
      created 09-12-2022 09:58 UTC (04:58 EDT)
      cite doi:10.1038/nbt.3820
      http://nextflow.io

nf-test

Installs nf-test

{
    "image": "mcr.microsoft.com/devcontainers/base:ubuntu",
    "features": {
        "ghcr.io/robsyme/features/nf-test:1": {}
    }
}

$ nf-test version

🚀 nf-test 0.7.1
https://code.askimed.com/nf-test
(c) 2021 - 2022 Lukas Forer and Sebastian Schoenherr

Nextflow Runtime:

      N E X T F L O W
      version 22.10.4 build 5836
      created 09-12-2022 09:58 UTC (04:58 EDT)
      cite doi:10.1038/nbt.3820
      http://nextflow.io