# Install snakemake with Homebrew, apt, Nix

Pythonic workflow system. Version 9.24.0 via Homebrew; verified 2026-07-31. Also installable with debian: sudo apt install snakemake.

## Install

```sh
sudo av install brew:snakemake
```

Additional install commands:

### macOS

- Homebrew (100%):

```sh
brew install snakemake
```

  Evidence: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install snakemake
```

  Evidence: Debian stable package indexes: snakemake from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz

- Nix (92%):

```sh
nix profile install nixpkgs#snakemake
```

  Evidence: nixpkgs package indexes: pkgs/by-name/sn/snakemake/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1

## Package facts

- **Package key:** brew:snakemake
- **Package manager:** Homebrew
- **Version:** 9.24.0
- **Source summary:** Pythonic workflow system
- **Homepage:** <https://snakemake.readthedocs.io/>
- **Repository:** <https://github.com/snakemake/snakemake>
- **Last updated:** 2026-07-31T14:26:29Z
- **Generated:** 2026-08-03T19:37:03+00:00

## Executables

- snakemake (alias)

## Install behavior

- Bottle: not available

## Freshness

- Page generated: 2026-08-03
- Package-manager version: 9.24.0
## Project history and usage

Snakemake is a Python-based workflow management system for reproducible and scalable data analyses, especially common in bioinformatics and scientific computing.

### Project history

The official citation page identifies the initial Snakemake publication as a 2012 Bioinformatics article, followed by a 2021 rolling paper for ongoing feature updates. The official GitHub README describes Snakemake workflows as human-readable, Python-based definitions that scale from local machines to server, cluster, grid, and cloud environments.

### Adoption history

The official README reports that Snakemake was receiving more than seven new citations per week in 2021 and had almost 400k downloads at that time. The supplied metadata shows distribution through Homebrew, Debian, Ubuntu, Fedora/DNF, and Nix.

### How it is used

Users describe workflows in Snakefiles, define rules, inputs, outputs, and software environments, and run snakemake to build requested targets. The official deployment docs recommend a repository layout with workflow code under workflow/ and configuration under config/, including config/config.yaml examples.

### Why package nerds care

Snakemake is significant for package maintainers because it bridges language-level workflow definitions, reproducible software deployment, Conda/container integration, and distribution through multiple OS package managers.

### Timeline

- 2012: Initial Snakemake paper published in Bioinformatics.
- 2019: Current official GitHub repository created.
- 2021: Sustainable data analysis with Snakemake rolling paper published.
- 2024: Snakemake 8 release line decomposes functionality into plugins.
- 2026: Stable documentation tracks Snakemake 9.x.

### Related projects

- Snakemake workflow catalog
- Snakemake wrappers
- Snakemake executor plugins
- Conda
- Apptainer

### Sources

- <https://api.github.com/repos/snakemake/snakemake>
- <https://github.com/snakemake/snakemake>
- <https://github.com/snakemake/snakemake/blob/main/docs/project_info/citations.rst>
- <https://github.com/snakemake/snakemake/blob/main/docs/snakefiles/deployment.rst>
- <https://snakemake.readthedocs.io/en/stable/project_info/history.html>
- input source_facts.package-manager


## Security Notes

No matching local secret-handling manifest was found for snakemake. Nucleus package metadata is still published here so future coverage has a stable package URL.



## Configuration and credential file locations

These source-backed paths show where this package keeps local settings or durable credentials. Automic Vault can use them as review targets for secret scanning, migration, and command approval.


## Configuration files

- Unix: config/config.yaml
## Other Package-Manager Records

- Debian apt - snakemake - 7.32.4-7: normalized package name match | Debian stable package indexes: snakemake from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | pythonic workflow management system | https://snakemake.readthedocs.io/
- Debian apt - snakemake-doc - 7.32.4-7: normalized package name match | Debian stable package indexes: snakemake-doc from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz | documentation for pythonic workflow management system | https://snakemake.readthedocs.io/
- Nix - snakemake: normalized package name match | nixpkgs package indexes: pkgs/by-name/sn/snakemake/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1
- Ubuntu apt - snakemake - 7.32.4-2: normalized package name match | Ubuntu 24.04 LTS package indexes: snakemake from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | pythonic workflow management system | https://snakemake.readthedocs.io/
- Ubuntu apt - snakemake-doc - 7.32.4-2: normalized package name match | Ubuntu 24.04 LTS package indexes: snakemake-doc from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | documentation for pythonic workflow management system | https://snakemake.readthedocs.io/


## Combined YAML source

View the package source record on GitHub. [combined/snakemake.yml](https://github.com/mxcl/pkgdb/blob/main/combined/snakemake.yml)


## Sources

- pkg.so package database
- Geiger risk classifier
- curated configuration and credential file locations
- curated package history
- pkgdb category and tag curation
- external package-manager database matches
- cross-ecosystem install command graph