DEVPROD-335: upgrade PyYaml to 6.0+ to fix cython_sources issue

[ubatmongo]

Ticket

DEVPROD-335

What

Following error appeared while setting up remote workstation

:warning:  Note: pipx was already on your PATH at /home/ubuntu/tmp-pipx-venv/bin/pipx
done! :sparkles: :star2: :sparkles:
  installed package pipx 1.2.1, installed using Python 3.10.4
  These apps are now globally available
    - pipx
################################################################################
Installing 'evg-module-manager' command...
creating virtual environment...
creating shared libraries...
upgrading shared libraries...
installing evg-module-manager...
Fatal error from pip prevented installation. Full pip output in file:
    /home/ubuntu/.local/pipx/logs/cmd_2023-10-31_13.44.50_pip_errors.log

pip seemed to fail to build package:
    PyYAML<6.0.0,>=5.4.1

Some possibly relevant errors from pip install:
    error: subprocess-exited-with-error
    AttributeError: cython_sources
Error installing evg-module-manager.

You may need to accept an email invite to receive access to repo 'mongodb/mongo'
running command 2 of 2 to provision project 'mongodb-mongo-master': error waiting on process 'dec3c8bd-f3db-43b4-9dfd-7322b759975f': exit status 1

This is happening during remote workstation setup

This came from evg-module-manager which still points to PyYAML 5.4.1. This version has known issue with new cython version. Previous issues with similar fixes

• https://jira.mongodb.org/browse/SERVER-79126
• https://jira.mongodb.org/browse/CLOUDP-190420

Upgraded the PyYaml to 6.0.1 to fix this issue

Tests done

• ran poetry install
• ran poetry run pytest (ended with mypy error)

[zituo-jin]

Is there a reason that we pin this specific version (not a range)?

[IamXander]

+1. I think this should be PyYAML = "^6.0.1"

[zituo-jin]

@ubatmongo

[ubatmongo]

Done

[IamXander]

Why did you add this as a dependency?

[ubatmongo]

The flake8 tests were failing https://parsley.mongodb.com/test/evg_module_manager_macos_1014_unit_tests_3.7_patch_832639cf64eb0c4d086506089a24f8f4ba839a2a_65416ad5d6d80a87a8ae8320_23_10_31_21_00_06/0/7b09f16a3440bb7e229b21e73629877f?bookmarks=0,25&shareLine=1

This error happens as flake8 depends on a older version of importlib_metadata
python/importlib_metadata#406

The way to avoid this error was to either comment the tests out or downgrade the library.