macOS
Homebrewverified · 100%
brew install snakemakelocal Homebrew formula metadata
brew / rank 2930
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
Additional install commands
Linux
Debian aptverified · 92%
sudo apt install snakemakeDebian stable package indexes · snakemake · source: deb.debian.org
Nixverified · 92%
nix profile install nixpkgs#snakemakenixpkgs package indexes · pkgs/by-name/sn/snakemake/package.nix · source: api.github.com
overview
Package summary
Pythonic workflow system
Project links
Commands and aliases
- snakemake
history
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 posture
No protected-tool coverage found yet
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.
Install behavior
- No Homebrew bottle metadata was recorded.
Recommended review
Before unattended agent use, check whether the tool reads plaintext credentials, writes remote state, publishes artifacts, or shells out to plugins.
local files
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
Config paths the tool may read or write during local use.
- Unix
config/config.yaml
executables
Installed executables
| Command | Kind | Exposure | Note |
|---|---|---|---|
snakemake | executable | indexed executable | Discovered from the local executable index. |
freshness
Version and freshness
These signals separate page generation age, package-manager activity, and upstream release comparison. Version lag is warned only when an evidence URL and comparable versions are present.
page generated2026-08-03
manager version9.24.0
manager updated2026-07-31
local dataunknown
upstreamnot available
latest detectednot detected
- okNo freshness warnings were generated.
install metadata
Package metadata
| Package key | brew:snakemake |
|---|---|
| Version | 9.24.0 |
| Package manager | Homebrew |
| Homepage | https://snakemake.readthedocs.io/ |
| Repository | https://github.com/snakemake/snakemake |
| Last updated | 2026-07-31T14:26:29Z |
| Pulse | updated |
| Bottle | not recorded |
| Service | none declared |
source database matches
Other package-manager records
Matches are pulled from external package-manager indexes and kept separate from local Automic Vault package links.
Debian apt95%
snakemake 7.32.4-7
pythonic workflow management system
https://snakemake.readthedocs.io/
sudo apt install snakemake- Section: science
- Architecture: all
- 28 dependencies
- 17 optional deps
- normalized package name match
- Matched by: Snakemake
Debian apt95%
snakemake-doc 7.32.4-7
documentation for pythonic workflow management system
https://snakemake.readthedocs.io/
sudo apt install snakemake-doc- Section: doc
- Architecture: all
- Source Package: snakemake
- 4 dependencies
- 1 optional deps
- normalized package name match
- Matched by: Snakemake
Nix95%
snakemake
nix profile install nixpkgs#snakemake- normalized package name match
- Matched by: Snakemake
Ubuntu apt95%
snakemake 7.32.4-2
pythonic workflow management system
https://snakemake.readthedocs.io/
sudo apt install snakemake- Section: universe/science
- Architecture: all
- 29 dependencies
- 17 optional deps
- normalized package name match
- Matched by: Snakemake
Ubuntu apt95%
snakemake-doc 7.32.4-2
documentation for pythonic workflow management system
https://snakemake.readthedocs.io/
sudo apt install snakemake-doc- Section: universe/doc
- Architecture: all
- Source Package: snakemake
- 4 dependencies
- 1 optional deps
- normalized package name match
- Matched by: Snakemake
source trail
Generated from repository data
This page is generated by av-web from the private package SQLite artifact built by scripts/generate-pkg-sqlite.py.
Combined YAML source
View the package source record on GitHub.
Used sources
- Geiger risk classifier
- cross-ecosystem install command graph
- curated configuration and credential file locations
- curated package history
- external package-manager database matches
- pkg.so package database
- pkgdb category and tag curation