genenetwork3 - GeneNetwork3 REST API for data science and machine learning

Age	Commit message (Collapse)	Author
2024-08-30	Fix merge conflict.	Alexander_Kabui

2024-08-29	Update doc-string for "handle_sparql_errors".	Munyoki Kilyungi
	* gn3/errors.py (handle_sparql_errors): Correct the doc-string. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-08-29	Return the correct status error code for url errors.	Munyoki Kilyungi
	* gn3/errors.py (url_server_error): Return a 500 http status code for URL server errors. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-08-29	Add logging for gn llm errors.	Alexander_Kabui

2024-08-26	Fix handling of sparql errors.	Munyoki Kilyungi
	* gn3/errors.py (handle_sparql_errors): Use the exception's class name to fetch the status code. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-08-01	Add logging for helping with troubleshooting.	Frederick Muriuki Muriithi

2024-08-01	Add handler for unhandled exceptions from `gn3.oauth2` module.	Frederick Muriuki Muriithi

2024-05-24	Initiliaze second args to LLMError as query parameter.	Alexander_Kabui

2024-05-24	Return first argument as error message.	Alexander_Kabui

2024-05-22	Register LLM error in app.	Alexander_Kabui
	* do refactoring for gn3:llm:errors
2024-03-04	Check for exception args and provide traceback.	Frederick Muriuki Muriithi

2024-03-04	Handle generic exceptions gracefully.	Frederick Muriuki Muriithi

2024-02-25	Correctly handle URLError.	Munyoki Kilyungi
	Using the `internal_server_error` function to handle URLError raised an exception because the `pnf` exception did not have some attributes. * gn3/errors.py (url_server_error): New function. (register_error_handlers): Register above function to handle URLError. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-02-14	Delete type hints from handle_sparql_errors.	Munyoki Kilyungi
	Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-02-14	Minor pep-8 fixes.	Munyoki Kilyungi
	Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-02-14	Handle sparql errors at the app level.	Munyoki Kilyungi
	Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-01-30	Add the traceback to the exceptions for display.	Frederick Muriuki Muriithi

2023-10-26	case-attribute: Fix linting errors.	Frederick Muriuki Muriithi

2023-10-19	Handle 404 error(s) at top level.	Frederick Muriuki Muriithi

2023-06-05	Handle unhandled SQLite3 errors.	Frederick Muriuki Muriithi

2023-05-29	Enable Administrator login on GN3	Frederick Muriuki Muriithi
	* gn3/auth/authentication/oauth2/views.py: Remove endpoint * gn3/auth/authorisation/users/admin/__init__.py: New admin module * gn3/auth/authorisation/users/admin/ui.py: New admin module * gn3/auth/authorisation/users/admin/views.py: New admin module * gn3/auth/views.py: Use new admin module * gn3/errors.py: Fix linting errors * gn3/templates/login.html: New html template * main.py: Fix linting errors
2023-05-27	Document Use of OAuth2 Clients	Frederick Muriuki Muriithi
	* docs/authentication_and_authorisation/oauth2_clients.md: New documentation * gn3/auth/authentication/oauth2/server.py: Raise appropriate error if no client is found. * gn3/auth/authentication/oauth2/views.py: Handle exception in the case where a UI should be presented to the user, rather than presenting the raw JSON response to the user. * gn3/errors.py: Handle any authlib OAuth2Error at the application's top-level * gn3/templates/oauth2/oauth2_error.html: Handle any authlib OAuth2Error at the application's top-level
2023-01-28	auth: Store error_code in Exception for flexibility	Frederick Muriuki Muriithi
	To allow for different error codes for the various exceptions, store the error_code in the exception objects and retrieve it from there when generating the response.
2023-01-04	auth: Add `/register-user` endpoint	Frederick Muriuki Muriithi
	* gn3/app.py: register top-level error handlers. reorganise oauth2 blueprint. * gn3/auth/__init__.py: reorganise oaut2 blueprint. * gn3/auth/authentication/oauth2/views.py: reorganise oauth2 blueprint. * gn3/auth/authorisation/exceptions.py -> gn3/auth/authorisation/errors.py * gn3/auth/authorisation/groups.py: rename file/module * gn3/auth/authorisation/resources.py: rename file/module * gn3/auth/authorisation/views.py: Add `/register-user` endpoint * gn3/auth/blueprint.py: reorganise oauth2 blueprint. * gn3/errors.py: register top-level error handlers.