Poetry integration messes up with package extras

[dolfinus]

Is there an existing issue for this?

• I have searched the existing issues

Package ecosystem

pip

Package manager version

poetry 2.2.1

Language version

Python 3.13

Manifest location and content before the Dependabot update

https://github.com/MobileTeleSystems/syncmaster/blob/41427e500a1b1b9da7240afc9f4fd1b918e222d7/pyproject.toml
https://github.com/MobileTeleSystems/syncmaster/blob/41427e500a1b1b9da7240afc9f4fd1b918e222d7/poetry.lock

dependabot.yml content

https://github.com/MobileTeleSystems/syncmaster/blob/41427e500a1b1b9da7240afc9f4fd1b918e222d7/.github/dependabot.yml

Updated dependency

fastapi 0.124.0 -> 0.125.0
black 25.11.0 -> 25.12.0

What you expected to see, versus what you actually saw

I use poetry to manage package dependencies. Package has multiple extras:

• data-syncmaster - pydantic + pydantic-settings + sqlalchemy
• data-syncmaster[server] - fastapi + uvicorn
• data-syncmaster[scheduler] - apscheduler
• data-syncmaster[worker] - celery + pyspark + onetl[ftp,ftps,hdfs,sftp,s3,webdav]

Dependabot correctly updates FastAPI version in pyproject.toml [tool.poetry.dependencies] section.

But in poetry.lock something strange happens:

• it drops some dependencies defined with extras == "worker", like ftputil (from onetl[ftp]), paramiko (from onetl[s3]), minio (from onetl[s3] -> minio), webdavclient3 (from onetl[webdav])
• for some dependencies with extras == "worker" it converts optional = true to optional = false, like etl-entities (from onetl without extras), psutil or bidict (from onetl -> etl-entities)

I cannot reproduce this by running poetry add fastapi==0.124.0 --optional server or poetry add black==25.12.0 --group dev - these commands touche only fastapi and black versions, and do not mess up with dependencies of extras == "worker".

Native package manager behavior

No response

Images of the diff or a link to the PR, issue, or logs

MobileTeleSystems/syncmaster@e73659d
https://github.com/MobileTeleSystems/syncmaster/pull/306/files

Smallest manifest that reproduces the issue

No response

[dolfinus]

Hm, why github-actions added label python:uv instead of python:poetry?