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Ran 07 Apr 2026 04:37PM UTC

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Build # 24092590782

Build Type

push

github

Committed by

web-flow

Commit Message

Migrate to pyproject.toml, modernize toolchain (#92)

* removed nose in setup.py

* Migrate from setup.py to pyproject.toml

Use modern PEP 621 project metadata with setuptools build backend.
Fixed numpy pin to >=2.0.0. Removed test deps (pylint, nose) from
requirements.txt. Dropped pypandoc RST conversion hack.

* Complete migration: remove nose/pylint/Travis, modernize deps, fix bugs

- Remove all nose imports, replace with pytest idioms and tests/common.py helpers
- Remove .travis.yml (CI is GitHub Actions), pylintrc, nosetests.xml from .gitignore
- Switch linting from pylint to ruff
- Bump CI actions to v4/v5, drop python2-minimal
- Bump pandas minimum to >=2.0.0 (numpy already >=2.0.0)
- Fix genome_from_args() for varcode API change (infer_genome returns tuple)
- Fix logging.warn -> logging.warning deprecation
- Bump version to 4.0.0

* Switch linting from pylint to ruff, update CI

* Fix CI: remove wkhtmltopdf (unused), install package with pip install -e .

The wkhtmltopdf bionic .deb fails on newer Ubuntu (missing libssl1.1)
and was never used by topiary or its tests. Also consolidated dep
install to use pip install -e . which handles requirements.txt via
pyproject.toml.

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