# -------------------------------------------------
# Ignore EVERYTHING inside Data/, but keep folder
# -------------------------------------------------
Data/*
!Data/.gitkeep

# -------------------------------------------------
# Ignore EVERYTHING inside GM_WM_Seg_Results/
# -------------------------------------------------
GM_WM_Seg_Results/*

# -------------------------------------------------
# Ignore EVERYTHING inside GMM_Debug/
# -------------------------------------------------
GMM_Debug/*

# -------------------------------------------------
# Ignore refactor pipeline test output
# -------------------------------------------------
refactor_out/

# -------------------------------------------------
# Ignore log files everywhere
# -------------------------------------------------
*.log
*.txt
# ...but requirements files are source, not output
!requirements.txt
!**/requirements.txt

# -------------------------------------------------
# Ignore svs, tif, tiff files everywhere
# -------------------------------------------------
*.svs
*.tif
*.tiff

# -------------------------------------------------
# Ignore sana git repo
# -------------------------------------------------
sana/

# -------------------------------------------------
# Ignore run_batch_script spreadsheet data
# -------------------------------------------------
run_batch_script/*.csv

# -------------------------------------------------
# Ignore evaluation result artifacts
# -------------------------------------------------
evaluation/eval_results/

# -------------------------------------------------
# Ignore Debugging artifacts
# -------------------------------------------------
debug/tissue_extraction_debug/
debug/SANA.log

# -------------------------------------------------
# Ignore .DS_Store
# -------------------------------------------------
.DS_Store
**/.DS_Store

# -------------------------------------------------
# Ignore Python caches
# -------------------------------------------------
__pycache__/
*.pyc

# -------------------------------------------------
# Ignore Claude Code local settings
# -------------------------------------------------
.claude/
