dotfiles

Personal dotfiles managed with GNU Stow. common/ holds shared defaults and host folders layer overrides.

Structure

dotfiles/
├─ common/        # shared packages
├─ mac/           # macOS overrides
├─ wsl-ubuntu/    # WSL Ubuntu overrides
├─ lab-ubuntu/    # lab Ubuntu overrides
├─ marlowe/       # host overrides
├─ sherlock/      # host overrides
├─ win/           # Windows-side config (e.g. WSL)
└─ stow-all.sh    # optional helper

Packages

• Zsh, Bash, POSIX sh, tcsh, xonsh
• Git + SSH
• Kitty + WezTerm
• Vim, Conda
• Aria2
• PyMOL scripts (submodule; auto-updated daily by Actions)
• Windows WSL config (win/wsl/.wslconfig)

Usage

git clone <repo> ~/dotfiles
cd ~/dotfiles
./stow-all.sh <host-dir>

.stowrc sets --target=~, so stow links into your home directory.

Pre-commit

Optional hooks for formatting/linting before commit:

pip install pre-commit  # or: brew install pre-commit
pre-commit install
pre-commit run --all-files

Hooks include shellcheck for .sh/.bash*, shfmt for .sh/.bash*/.zsh*, stylua for *.lua, plus basic whitespace, EOF, merge-conflict, YAML, JSON, and TOML checks.

Extras

• Init PyMOL submodule: git submodule update --init --recursive
• Add a new package: create the folder, mirror $HOME paths, run stow <package>