genenetwork3 - GeneNetwork3 REST API for data science and machine learning

Age	Commit message (Collapse)	Author
2022-12-12	auth: pass cursor object to `user_group` function	Frederick Muriuki Muriithi

2022-12-12	auth: Attach group to GroupRole, rather than group_id	Frederick Muriuki Muriithi

2022-12-08	tests: Fix issues caught by tests	Frederick Muriuki Muriithi
	The addition of the `public` field in the `resources` table, led to some previously passing tests to fail. This commit fixes the failures, and cleans up some pylint issues. * gn3/auth/authorisation/resources.py: add `public` to db queries * tests/unit/auth/test_groups.py: fix pylint issues
2022-12-08	auth: add function to retrieve a user's group	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/groups.py: new `user_group` function * tests/unit/auth/test_groups.py: test `user_group` function
2022-11-24	auth: Check for authentication and fix errors	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/groups.py: base `MembershipError` on new `AuthorisationError` base exception. Use new authentication checking decorator. * gn3/auth/authorisation/privileges.py: Change argument to User object rather than UUID object * gn3/auth/authorisation/roles.py: Use new authentication checking decorator. * tests/unit/auth/test_groups.py: use `conftest.TEST_USER` * tests/unit/auth/test_privileges.py: use `conftest.TEST_USER` * tests/unit/auth/test_roles.py: use `conftest.TEST_USER`
2022-11-21	auth: Prevent group leader from being a member of multiple groups	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/groups.py: Assign the group leader at group creation time. * tests/unit/auth/test_groups.py: Ensure the group leader is only ever a member of a single group.
2022-11-17	auth: Finish implementation of `create_group_role`	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/groups.py: Add `GroupRole` type. Fix typing annotations. Fix bugs. * tests/unit/auth/conftest.py: Fix bugs. * tests/unit/auth/test_groups.py: Fix test to run.
2022-11-17	tests: Add test to check creation of roles attached to groups	Frederick Muriuki Muriithi
	* tests/unit/auth/conftest.py: Add fixtures to help with testing * tests/unit/auth/test_groups.py: Add incomplete and failing test
2022-11-15	auth: Return results of calling function directly	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/checks.py: Return results of calling the function rather than a dict of values that include the results. * gn3/auth/authorisation/groups.py: Use the newer form of `authorised_p` decorator. * tests/unit/auth/test_groups.py: Update tests
2022-11-15	pylint: Fix a myriad of linting errors	Frederick Muriuki Muriithi

2022-11-15	tests: Fix cause of `DeprecationWarning`	Frederick Muriuki Muriithi
	* tests/unit/auth/test_groups.py: use Flask's application context directly rather than the request context to access `g` in order to get rid of the `DeprecationWarning`.
2022-11-14	auth: Implement `create_group`	Frederick Muriuki Muriithi

2022-11-14	auth: Add test for `create_group`	Frederick Muriuki Muriithi
	* gn3/auth/authorisation/__init__.py: Add `authorised_p` decorator to be used for all function requiring authorisation. * gn3/auth/authorisation/groups.py: Add `create_group` function stub * tests/unit/auth/conftest.py: Add fixture for test users * tests/unit/auth/test_groups.py: Add tests for `create_group`