GITHUB_PUBLISHING.md
LICENSE
MANIFEST.in
PYPI_PUBLISHING.md
README.md
README_MANUAL.md
RELEASE.md
pyproject.toml
src/cophyloforge/__init__.py
src/cophyloforge/api.py
src/cophyloforge/cache.py
src/cophyloforge/cli.py
src/cophyloforge/inference.py
src/cophyloforge/io.py
src/cophyloforge/model_registry.py
src/cophyloforge/preprocess.py
src/cophyloforge/report.py
src/cophyloforge.egg-info/PKG-INFO
src/cophyloforge.egg-info/SOURCES.txt
src/cophyloforge.egg-info/dependency_links.txt
src/cophyloforge.egg-info/entry_points.txt
src/cophyloforge.egg-info/requires.txt
src/cophyloforge.egg-info/top_level.txt
src/cophyloforge/resources/default_config.yaml
tests/test_cli.py
tests/test_inference.py
tests/test_io.py