| Age | Commit message (Expand) | Author |
|---|
| 2023-12-05 | mypy: Deactivate search for flask_cors stubs | Frederick Muriuki Muriithi |
| 2023-12-05 | Add missing scripts and update code to invoke them...Copy the missing scripts over from GN3 and update them for
gn-auth. Update the code to invoke the scripts correctly. Set up
correct redis keys for use with the scripts.
| Frederick Muriuki Muriithi |
| 2023-12-05 | Enable CORS to allow access from GN2 javascript | Frederick Muriuki Muriithi |
| 2023-11-28 | Remove bcrypt as a dependency...BCrypt has been superceded by argon, and this commit removes it and
all code depending on it from the repository.
| Frederick Muriuki Muriithi |
| 2023-11-23 | Scripts: Update script for newer db schema...The schema changed a while back, and the script that is used to make
all existing data public needs to be updated for the new schema. This
commit does exactly that.
| Frederick Muriuki Muriithi |
| 2023-11-22 | Make existing user admin using core system functions...Use the core system functions to both fetch the user and make them
into a system admin, rather than fetching with raw queries. This way,
if the way the users are fetched, or made into an admin, changes, we
do not need to update the scripts for most part.
| Frederick Muriuki Muriithi |
| 2023-11-22 | Move system admin creation...Make the system admin creation code part of the core system, and
simply call it from the script(s). This will help with maintenance,
since the changes are done in a single place only.
| Frederick Muriuki Muriithi |
| 2023-11-22 | Only commit on successful query...Only commit changes if the queries are successful.
| Frederick Muriuki Muriithi |
| 2023-11-17 | Bug: Update query in script...Update query in script to provide resource_id for the user_roles tabel.
| Frederick Muriuki Muriithi |
| 2023-11-17 | Add styles. | Frederick Muriuki Muriithi |
| 2023-11-17 | Setup path to static paths correctly. | Frederick Muriuki Muriithi |
| 2023-11-13 | Bug: Fix typo in query | Frederick Muriuki Muriithi |
| 2023-11-13 | Update check for admins | Frederick Muriuki Muriithi |
| 2023-11-02 | Config: Use instance_path to load secrets. | Frederick Muriuki Muriithi |
| 2023-11-02 | mypy: Fix typing errors. | Frederick Muriuki Muriithi |
| 2023-11-02 | pylint: Fix linting errors. | Frederick Muriuki Muriithi |
| 2023-10-27 | Use upstream `yoyo-migrations` | Frederick Muriuki Muriithi |
| 2023-10-27 | Configuration: OAUTH2_SCOPE - provide clarification...Adds clarification that the `OAUTH2_SCOPE` setting is provided by
default, and so the final settings are only necessary to override
that.
| Frederick Muriuki Muriithi |
| 2023-10-12 | migrations: Create role for dealing with inbredset groups. | Frederick Muriuki Muriithi |
| 2023-10-12 | Bugs: Fix query and provide default function for inbredset-group | Frederick Muriuki Muriithi |
| 2023-10-12 | Assign role to act on InbredSets to admin. | Frederick Muriuki Muriithi |
| 2023-10-10 | Get authorisation by resource_ids...Add an endpoint to help users get the resources authorisation by the
resource ids.
| Frederick Muriuki Muriithi |
| 2023-10-10 | Temporarily return no data for resources of types system and group. | Frederick Muriuki Muriithi |
| 2023-10-09 | Fetch InbredSet group resource ID by SpeciesId and InbredSetId...Get the resource used to control access to the InbredSet group by that
group's SpeciesId and InbredSetId.
| Frederick Muriuki Muriithi |
| 2023-10-09 | scripts: Provide script to link InbredSets to auth system. | Frederick Muriuki Muriithi |
| 2023-10-02 | migrations: New migration - InbredSet Resources...Provide a new migration to create tables to handle the InbredSet
resources. The migration also sets up the resource category and the
related privileges.
| Frederick Muriuki Muriithi |
| 2023-09-29 | Make migrations directory a package. | Frederick Muriuki Muriithi |
| 2023-09-27 | Add missing import | Frederick Muriuki Muriithi |
| 2023-09-27 | List all packages to install. | Frederick Muriuki Muriithi |
| 2023-09-27 | Update setup.py...- Update the name and version
- Include the whole of gn-auth in the `packages` list
- Include any non-python files in the install
| Frederick Muriuki Muriithi |
| 2023-09-27 | Update dependency: Use upstream python-mypy | Frederick Muriuki Muriithi |
| 2023-09-27 | guix-bioinformatics: Update guix channel URL | Frederick Muriuki Muriithi |
| 2023-09-27 | typing: fix and ignore typing issues. | Frederick Muriuki Muriithi |
| 2023-09-27 | linting: Remove unused import, handle unused variable | Frederick Muriuki Muriithi |
| 2023-09-27 | Bug: Fix issue with viewing resources of type "group". | Frederick Muriuki Muriithi |
| 2023-09-26 | Update query...Replace `group_user_roles_on_resources` table with `user_roles` for
the query that checks whether the user has appropriate permissions to
act on a specific resource.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Handle AuthorisationError at the top-level...Add an error handler to gracefully handle the custom
AuthorisationError at the application's top-level to avoid having to
manually handle it everywhere that the error (and its sub-classes)
might be raised.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Handle temporary edge cases...Fetching resource data: system and group categories of resources do
not have associated genetic data.
This commit adds some code to temporarily handle that case as an edge
case before I can devote more time to fixing the issue in a much
better way.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Add `public-view` role. Assign it to users....Add a new `public-view` role to be assigned to all users on all
resources that are defined as publicly viewable.
Update code to make assign `public-view` role to a newly registered
user for all publicly viewable roles.
Update the code to assign/revoke the `public-view` role to/from users
whenever the resource is toggled to and from being publicly viewable.
Ensure that `public-view` is not revoked from system-administrators.
Ensure that `public-view` is not revoked from the group administrators
of the group that owns the resource.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Update fetching a single role | Frederick Muriuki Muriithi |
| 2023-09-26 | Initialise package to handle resources of type "system". | Frederick Muriuki Muriithi |
| 2023-09-26 | Update /roles endpoint: rework code for new `user_roles` function...The way the `gn_auth.auth.authorisation.roles.models.user_roles`
function works has changed: this commit updates the code to take that
into consideration and fix any errors.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Add default `REDIS_URI` configuration. | Frederick Muriuki Muriithi |
| 2023-09-26 | Add System resource, and group resource(s) to list of user resources...* The system resource is public, and should be present for all users.
* Each user that is a member of a group, should have their group show
up in their list of resources.
* Fix the SQL join: add an `ON ...` clause.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Update `user_roles`: Return roles for user by resource. | Frederick Muriuki Muriithi |
| 2023-09-26 | Move `groups` package under `resources` package...With user groups being resources that users can act on (with the
recent changes), this commit moves the `groups` module to under the
`resources` module.
It also renames the `*_resources.py` modules by dropping the
`_resources` part since the code is under the `resources` module
anyway.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Update tests & fixtures to conform to schema changes | Frederick Muriuki Muriithi |
| 2023-09-26 | Remove group from resource objects...With the new schema, not all Resource objects are "owned" by a
group. Those that are, are linked together through a different db
table (`resource_ownership`).
This commit removes the `Group` object from `Resource` objects and
updates the `resource_ownership` where relevant.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Raise exception if no group for `resource_group`...Rather than using pymonad's Maybe monad and dealing with the
complexity it introduces, raise an exception if there is no group
found for the given resource.
| Frederick Muriuki Muriithi |
| 2023-09-26 | Add `resource_group` function to retrieve the owning group...Some resources are "owned" by specific user groups. This commit adds a
way to retrieve those "owners" where relevant.
| Frederick Muriuki Muriithi |
