.gitignore

# =============================================================================
# deepSTRF-specific
# =============================================================================

# --- Claude Code / local-only assistant files (NEVER push) ---
/CLAUDE.md
/NEXT_PROMPT.md
/IDEAS.md
/ROUTINE.md
/ROUTINES.md
/TODO.md
/benchmark.md
.claude/

# --- Local-only WIP / scratch (NEVER push) ---
# Free-form parking lot for in-progress experiments, scratch scripts,
# downloaded references, etc. Keeps the working tree from being noisy.
/untracked/

# --- Local notebook builders (one-off scripts that emit committed .ipynb) ---
_build_*.py

# --- Local training/push scripts for pretrained model uploads (NEVER push) ---
# One-off recipes that train a model and push the checkpoint to HF Hub. The
# canonical reproducible recipe is recorded in docs/_source/md/pretrained_models.md;
# this script is the throwaway driver. See pretrained_models.md "Reproducing".
_train_push_*.py
_train_push_*.json

# --- Paper drafts and supplementary (NEVER push) ---
/deepSTRF_paper_draft.pdf
*paper_draft*
/paper/
/paper_figures/

# --- Raw & preprocessed dataset data (NEVER push, hosted on CRCNS/OSF/Zenodo/Dryad) ---
# Any 'data/' subdirectory anywhere under the datasets tree.
deepSTRF/datasets/**/data/
# Dataset-host README PDFs that live next to the data dirs.
deepSTRF/datasets/**/*-readme.pdf
deepSTRF/datasets/**/*_readme.pdf
deepSTRF/datasets/**/ReadMe.*
# Stray preprocessed dumps occasionally produced by preprocessing scripts.
deepSTRF/datasets/**/*.pt

# --- Data file extensions (neural recordings / spectrograms / archives) ---
*.pt
*.pth
*.npy
*.npz
*.mat
*.h5
*.hdf5
*.nwb
*.wav
*.mp3
*.flac
*.csv
*.tsv
*.parquet
*.zip
*.tgz
*.tar.gz
*.tar
*.rar
*.7z
*.bz2

# --- Run outputs / experiments ---
wandb/
/deepSTRF/results/
/results/
/checkpoints/
/runs/
*.ckpt


# =============================================================================
# Python standard ignores
# =============================================================================

# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
*$py.class

# C extensions
*.so

# Distribution / packaging
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
share/python-wheels/
*.egg-info/
.installed.cfg
*.egg
MANIFEST

# PyInstaller
*.manifest
*.spec

# Installer logs
pip-log.txt
pip-delete-this-directory.txt

# Unit test / coverage reports
htmlcov/
.tox/
.nox/
.coverage
.coverage.*
.cache
nosetests.xml
coverage.xml
*.cover
*.py,cover
.hypothesis/
.pytest_cache/
cover/

# Translations
*.mo
*.pot

# Sphinx documentation
docs/_build/
docs_md/_build/

# PyBuilder
.pybuilder/
target/

# Jupyter Notebook
.ipynb_checkpoints/

# IPython
profile_default/
ipython_config.py

# pyenv / pipenv / poetry / pdm
# .python-version
# Pipfile.lock
# poetry.lock
# pdm.lock
.pdm.toml

# PEP 582
__pypackages__/

# Celery
celerybeat-schedule
celerybeat.pid

# SageMath parsed files
*.sage.py

# Environments
.env
.venv
env/
venv/
ENV/
env.bak/
venv.bak/

# Spyder / Rope
.spyderproject
.spyproject
.ropeproject

# mkdocs
/site

# mypy / pyre / pytype / ruff
.mypy_cache/
.dmypy.json
dmypy.json
.pyre/
.pytype/
.ruff_cache/

# Cython debug symbols
cython_debug/

# Logs
*.log

# =============================================================================
# IDEs / editors
# =============================================================================
.idea/
*.iml
.vscode/
*.swp
*.swo
.DS_Store
Thumbs.db