# 使用 Homebrew, apt, Nix 安装 snakemake

查看 snakemake 的安装路径、可执行文件、元数据以及面向 AI 代理工作流的安全说明。

## 安装

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

其他安装命令:

### macOS

- Homebrew (100%):

```sh
brew install snakemake
```

  证据: local Homebrew formula metadata

### Linux

- Debian apt (92%):

```sh
sudo apt install snakemake
```

  证据: 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
```

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

## 软件包事实

- **软件包键:** brew:snakemake
- **软件包管理器:** Homebrew
- **版本:** 9.24.0
- **来源摘要:** Pythonic workflow system
- **主页:** <https://snakemake.readthedocs.io/>
- **仓库:** <https://github.com/snakemake/snakemake>
- **最后更新:** 2026-07-31T14:26:29Z
- **已生成:** 2026-08-03T19:37:03+00:00

## 可执行文件

- snakemake (别名)

## 安装行为

- Bottle: 不可用

## 版本和新鲜度

- 页面生成时间: 2026-08-03
- 管理器版本: 9.24.0
## 项目历史与用法

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

### 项目历史

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.

### 采用历史

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.

### 使用方式

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.

### 为什么软件包爱好者会关心

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.

### 时间线

- 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

### 来源

- <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


## 安全说明

没有找到 snakemake 的匹配本地密钥处理 manifest。Nucleus 软件包元数据仍在此发布，以便未来覆盖拥有稳定的软件包 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
## 其他软件包管理器记录

- 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)


## 来源

- 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