# Install snakemake with Homebrew, apt, dnf, Nix Pythonic workflow system. Version 9.23.1 via Homebrew; verified 2026-06-19. ## 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 - dnf (92%): ```sh sudo dnf install snakemake ``` Evidence: Fedora Rawhide package metadata: snakemake from https://dl.fedoraproject.org/pub/fedora/linux/development/rawhide/Everything/x86_64/os/repodata/e5ca8ce900cd68f5419e1c39ae517343100b306336cbaeb70a3c153121d95094-primary.xml.zst - 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 - **Package manager page:** - **Version:** 9.23.1 - **Source summary:** Pythonic workflow system - **Homepage:** - **Repository:** - **Upstream docs:** - **License:** MIT - **Source archive:** - **Last updated:** 2026-06-19T11:07:37Z - **Generated:** 2026-07-08T07:18:31+00:00 ## Executables - snakemake (cli) - snakemake (alias) ## Dependencies - cbc - certifi - libyaml - pydantic - python@3.14 - rpds-py ## Build dependencies - rust ## Install behavior - Post-install hook: not defined - Bottle: available on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux ## Freshness - Page generated: 2026-07-08 - Package-manager version: 9.23.1 - Package-manager updated: 2026-06-19 - Local data: ok - Upstream repository: https://snakemake.readthedocs.io/ - info: Release/tag comparison is only available for GitHub repositories. ## 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 - - - - - - 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 ## Source Database Details - **Source Database:** Homebrew formula API - **Tap:** homebrew/core - **Full Name:** snakemake - **Version Scheme:** 0 - **Revision:** 0 - **Head Version:** HEAD - **Bottle Stable Root URL:** - **Deprecated:** no - **Disabled:** no - **Keg Only:** no - **URL Keys:** head, stable ## 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/ - dnf - snakemake - 9.21.1-3.fc45~bootstrap: normalized package name match | Fedora Rawhide package metadata: snakemake from https://dl.fedoraproject.org/pub/fedora/linux/development/rawhide/Everything/x86_64/os/repodata/e5ca8ce900cd68f5419e1c39ae517343100b306336cbaeb70a3c153121d95094-primary.xml.zst | Workflow management system to create reproducible and scalable data analyses | https://snakemake.readthedocs.io/en/stable/index.html - dnf - snakemake+reports - 9.21.1-3.fc45~bootstrap: normalized package name match | Fedora Rawhide package metadata: snakemake+reports from https://dl.fedoraproject.org/pub/fedora/linux/development/rawhide/Everything/x86_64/os/repodata/e5ca8ce900cd68f5419e1c39ae517343100b306336cbaeb70a3c153121d95094-primary.xml.zst | Metapackage for snakemake: reports extras | https://snakemake.readthedocs.io/en/stable/index.html ## Related links - [Terminal utility packages](https://www.automicvault.com/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata. - [Language runtime packages](https://www.automicvault.com/pkg/language-runtime-packages/) - Matched language runtime, compiler, or interpreter metadata. - [Networking and protocol packages](https://www.automicvault.com/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata. - [Database and data packages](https://www.automicvault.com/pkg/database-data-tools/) - Matched database, SQL, migration, or data-store metadata. - [cbc](https://www.automicvault.com/pkg/brew/cbc/) - Runtime dependency declared by Homebrew. - [python@3.14](https://www.automicvault.com/pkg/brew/python-3-14/) - Runtime dependency declared by Homebrew. - [rust](https://www.automicvault.com/pkg/brew/rust/) - Build dependency declared by Homebrew. - [gnuastro](https://www.automicvault.com/pkg/brew/gnuastro/) - Shares av.db curated category or tags: cli, data-analysis, science. - [healpix](https://www.automicvault.com/pkg/brew/healpix/) - Shares av.db curated category or tags: cli, data-analysis, science. - [nextflow](https://www.automicvault.com/pkg/brew/nextflow/) - Shares av.db curated category or tags: cli, reproducibility, science, workflow. - [qsoas](https://www.automicvault.com/pkg/brew/qsoas/) - Shares av.db curated category or tags: cli, data-analysis, science. - [root](https://www.automicvault.com/pkg/brew/root/) - Shares av.db curated category or tags: cli, data-analysis, science. - [xlispstat](https://www.automicvault.com/pkg/brew/xlispstat/) - Shares av.db curated category or tags: cli, data-analysis, science. - [cromwell](https://www.automicvault.com/pkg/brew/cromwell/) - Shares av.db curated category or tags: bioinformatics, cli, science, workflow-management. - [cutadapt](https://www.automicvault.com/pkg/brew/cutadapt/) - Shares av.db curated category or tags: bioinformatics, cli, python, science. - [jupyterlab](https://www.automicvault.com/pkg/brew/jupyterlab/) - Both packages touch the same language runtime or ecosystem. Shared terms: certifi, cli, data, libyaml, python. ## Combined YAML source View the package source record on GitHub. [combined/snakemake.yml](https://github.com/automic-vault/db/blob/main/combined/snakemake.yml) ## Sources - Nucleus package database - Geiger risk classifier - package-page enrichment - curated configuration and credential file locations - curated package history - package version freshness - av.db category and tag curation - package relationship graph - external package-manager database matches - cross-ecosystem install command graph