Dependency management

Note

This page is about the management of (software) dependencies, which involves ensuring the availability of the necessary libraries, environments, and system tools for programs to run properly.

Workflow dependencies, which means the ordering of tasks and the input/output relationships required for a workflow to function, are covered in Workflow management.

Introduction¶

Lockfiles¶

TBD

System package managers¶

Homebrew (macOS)¶

Homebrew

The default installation path is opt/homebrew

Chocolatey (Windows)¶

Chocolatey Software | Chocolatey - The package manager for Windows

Language package managers¶

CRAN (R)¶

pip (Python)¶

pip · PyPI

npm (JavaScript)¶

npm | Home

Environment managers¶

renv (R)¶

venv (Python)¶

TBD

Conda (multi-language)¶

Conda Documentation — conda-docs documentation

Miniconda:

Miniconda - Anaconda

Conda commands¶

List all conda environments:

conda env list
conda info --envs

Create a new conda environment:

conda create --name <env_name>

Conda files¶

Pixi (multi-language)¶

prefix.dev – solving software package management

Container managers¶

Docker ¶

TBD

Podman ¶

Podman

Singularity¶

Introduction to Singularity — Singularity container 3.5 documentation