Add ruff as a linter to replace pycodestyle.

.gitlab-ci.yml

.vscode/extensions.json

Dockerfile

docs/develop/setup.md

docs/explanation/architecture.md

nomad/app/optimade/common.py

nomad/bundles.py

nomad/cli/admin/migrate.py

nomad/cli/dev.py

nomad/files.py

nomad/metainfo/metainfo.py

nomad/normalizing/mof_deconstructor.py

nomad/parsing/parsers.py

nomad/processing/data.py

nomad/search.py

pycodestyle.ini

pyproject.toml

requirements-dev.txt

tests/app/v1/routers/test_entries.py

tests/app/v1/routers/test_uploads.py