# macOS / editor noise
.DS_Store
._*
.idea/
.vscode/
*.swp
*.swo

# Python caches / build outputs
__pycache__/
*.py[cod]
*$py.class
.pytest_cache/
.ruff_cache/
.mypy_cache/
.pyre/
.coverage
coverage.xml
htmlcov/
build/
dist/
*.egg-info/

# Python environments
.venv/
venv/
env/
.env
.env.*
!.env.example
*.conda

# Jupyter / notebooks
.ipynb_checkpoints/

# Logs and local scratch
*.log
logs/
tmp/
temp/
scratch/

# Generated simulator datasets and shards
DLCoalSim-*/
DLCoalSim_Out/
DLCoalSim-Out/
sim_dat/
outputs/
datasets/
data/
!data/
data/*
!data/templates/
data/templates/*
!data/templates/README.md
!data/templates/human_ne/
!data/templates/human_ne/**
!data/templates/stdpopsim_single_pop/
!data/templates/stdpopsim_single_pop/**
data/**/.DS_Store
data/**/.Rhistory
shards/
splits/
manifest.json
config.json

# PyTorch / deep learning artifacts
checkpoints/
models/
runs/
wandb/
lightning_logs/
tensorboard/
mlruns/
*.pt
*.pth
*.ckpt
*.onnx
*.safetensors

# Large population-genetics intermediate files
*.trees
*.ts
*.vcf
*.vcf.gz
*.bcf
*.bed.gz
*.bim
*.fam
*.pgen
*.pvar
*.psam

# Raw/downloaded map sources and processing caches
maps/**/raw/
maps/**/vcf/
maps/**/.cache/
maps/**/script/__pycache__/

# Keep canonical processed maps and docs trackable.
!maps/**/output/
!maps/**/output/**/*.bed
!maps/**/*.md
dlcoalsim.egg-info/