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

# C extensions
*.so

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

# OS generated files
.DS_Store

# PyInstaller
#  Usually these files are written by a python script from a template
#  before PyInstaller builds the exe, so as to inject date/other infos into it.
*.manifest
*.spec

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

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

# Translations
*.mo
*.pot

# Django stuff:
*.log
local_settings.py

# Flask stuff:
instance/
.webassets-cache

# Scrapy stuff:
.scrapy

# Sphinx documentation
docs/_build/
docs/rs_graph.*rst
docs/modules.rst

# PyBuilder
target/

# Jupyter Notebook
.ipynb_checkpoints

# pyenv
.python-version

# celery beat schedule file
celerybeat-schedule

# Dask
dask-worker-space

# SageMath parsed files
*.sage.py

# dotenv
.env

# virtualenv
.venv
venv/
ENV/

# Spyder project settings
.spyderproject
.spyproject

# Rope project settings
.ropeproject

# mkdocs documentation
/site

# mypy
.mypy_cache/

# ruff
.ruff_cache/

# VSCode
.vscode

# keys
.keys

# Quarto generated
_build/
.quarto/
/.quarto/
index.ipynb
index.md
index_files/
index.tex

# Project specific
joss-short-paper-details.parquet
joss-upstream-deps-failed.parquet
joss-upstream-deps.parquet
softwarex-short-paper-details.parquet
rs-graph-upstream-deps-failed.parquet
rs-graph-upstream-deps.parquet
.github-tokens.json
.github-tokens.yml
.open-alex-emails.yml
.elsevier-api-keys.yml
autotrain-text-classification-temp
model-eval-results/
prior-model-eval-results/
processing-results/
elsarticle-harv.bst
elsarticle.cls
qss-code-authors.spl
qss-code-authors.tex

# Ignore all files in the data/files/ directory
rs_graph/data/files/*
author-dev-em-annotation-dataset.csv
author-dev-em-annotation-dataset-irr.csv
author-dev-em-confusion-matrix.png
author-dev-em-roc-curve.png
dev-author-em-annotation-dataset.csv
dev-author-em-annotation-dataset-irr.csv
dev-author-em-confusion-matrix.png
dev-author-em-roc-curve.png
scratch.py
dev-author-em-clf
all-model-results.csv
random-sample-prelinked-sources.csv
softcite-2025-prepped.parquet
links-between-papers-and-code.json.gz