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2023-02-23oauth2: data: link data to groups.Frederick Muriuki Muriithi
2023-02-22oauth2: Provide UI to select and list ungrouped data.Frederick Muriuki Muriithi
2023-02-21oauth2: resources: List resource data. List unlinked data.Frederick Muriuki Muriithi
List a particular resource's data. List any unlinked data that can be attached to a particular resource.
2023-02-17Use abbreviation as symbol for phenotypes in collection pagezsloan
2023-02-17Default trait abbreviation to N/A and only set to ↵zsloan
pre/post_publication_abbreviation if they're not None
2023-02-14Fix collection page error when ProbeSet/Publish traits don't have a meanzsloan
2023-02-13Enable mapping compute buttons and change text back to Compute after tables ↵zsloan
have loaded
2023-02-13Initially disable mapping compute buttons + change their text to Loadingzsloan
2023-02-10oauth2: data: Start on UI for linking data to groups.Frederick Muriuki Muriithi
2023-02-09oauth2: groups: Reject join requests.Frederick Muriuki Muriithi
Add handler for rejecting user join requests. Fix a number of minor UI bugs.
2023-02-09oauth2: fix variable name. Fetch join requests if there's no group.Frederick Muriuki Muriithi
2023-02-09oauth2: Remove create/join options with active requestFrederick Muriuki Muriithi
If a user has an active join request, then do not provide them with the option to create a new group, or even to request to join another group.
2023-02-09oauth2: reorganise the endpoints.Frederick Muriuki Muriithi
2023-02-08oauth2: groups: Handle join requests.Frederick Muriuki Muriithi
2023-02-07oauth2: groups: Enable user to request to be added to group.Frederick Muriuki Muriithi
2023-02-06oauth2: resources: View resource. Handle creation error/successFrederick Muriuki Muriithi
* Handle the resource creation success or error in a better way than simply dropping the user to a plaintext/json results page. * Enable viewing a particular resource's details.
2023-02-03oauth2: resource: implement incomplete resource creation flowFrederick Muriuki Muriithi
2023-02-02oauth2: Update endpoints to the API serverFrederick Muriuki Muriithi
The endpoints to the GN3 API server changed in a recent update, necessitating this commit to update the endpoints.
2023-01-31oauth2: Display members in groups page. Rework UI.Frederick Muriuki Muriithi
2023-01-31oauth2: Fix bugs with group creation. Rename functions.Frederick Muriuki Muriithi
Fix some bugs with group creation, mainly correctiong the urls. Rename importable functions to remove the double underscores.
2023-01-31oauth2: remove obsolete function.Frederick Muriuki Muriithi
2023-01-30oauth2: update urlFrederick Muriuki Muriithi
2023-01-30oauth2: fix errors.Frederick Muriuki Muriithi
2023-01-30oauth2: Fix missing imports and update URLsFrederick Muriuki Muriithi
2023-01-30oauth2: Fix missing import.Frederick Muriuki Muriithi
2023-01-30 oauth2: Add placeholder endpoints and UI elementsFrederick Muriuki Muriithi
Add some endpoints and UI elements to act as placeholders for yet to be implemented functionality.
2023-01-30oauth2: Display user's group information.Frederick Muriuki Muriithi
2023-01-30oauth2: split out code into separate modulesFrederick Muriuki Muriithi
To ease development and maintenance, split the code into separate modules, nesting the blueprints for a more modular feel.
2023-01-28oauth2: List the user roles. View a particular role's details.Frederick Muriuki Muriithi
2023-01-26oauth2: UI: Rework user dashboard UIFrederick Muriuki Muriithi
Separate the roles, resources and group information from the overview page.
2023-01-24scripts: Provide help info for script.Frederick Muriuki Muriithi
2023-01-24correlations: Escape strings for htmlFrederick Muriuki Muriithi
Improves upon commit 63aff5ca22cfb5caaa38ac1d737afa48fc8dbf02
2023-01-23oauth2: create groupFrederick Muriuki Muriithi
Enable creation of a new group.
2023-01-23oauth2: Retain email input, and "next uri" on errorFrederick Muriuki Muriithi
Retain the "next uri" and the email the user had input in the case of an error, so that the user has the chance to correct their input, and still get to the uri they originally intended to (on success).
2023-01-21oauth2: Cleanup fetching of roles and groups. Update template.Frederick Muriuki Muriithi
2023-01-20oauth2: Add user-profile template and dummy endpointsFrederick Muriuki Muriithi
* wqflask/wqflask/oauth2/routes.py: add some dummy endpoints to be fleshed out * wqflask/wqflask/templates/oauth2/view-user.html: Add missing template for the /user-profile endpoint
2023-01-20oauth2: Revoke token on logoutFrederick Muriuki Muriithi
If a user logs out of the session, and their token is not revoked, if their token were to leak somehow, then an attacker could use it before it expired. Explicit revocation of the token helps avoid that.
2023-01-19Replace angle brackets in trait descriptions for correlation results, since ↵zsloan
previously it wasn't showing some e-mail addresses (in brackets)
2023-01-19oauth2: Implement user registration.Frederick Muriuki Muriithi
2023-01-19Feature/toggle switch caching (#762)Alexander Kabui
* add optional use cache checkbox * add check for use_cache
2023-01-12Add BXD-NIA-AD to list of BXD_GROUP_EXCEPTIONS (so the correct options show ↵zsloan
up in correlation drop-down)
2023-01-12Revert "bug: use stderr in case of job errors"Frederick Muriuki Muriithi
This reverts commit 4666392bbc34e693f21895ccb62abb816ff95874.
2023-01-12mechanical-rob: use new file(s) for correlation correctnessFrederick Muriuki Muriithi
* test/requests/correlation_results_text_files/BXD_10710_vs_BXDPublish.csv new sample file for testing. * test/requests/correlation_tests.py: update test code to use new sample files * wqflask/wqflask/correlation/show_corr_results.py: Fix minor issues exposed by tests.
2023-01-12bug: use stderr in case of job errorsFrederick Muriuki Muriithi
2023-01-09Add Show/Hide Columns to collections/viewzsloan
2023-01-09Add back option to search on trait page tablezsloan
This was mistakenly removed when the table code was refactored a while back
2023-01-05Turn on homology track by defaultzsloan
2023-01-04auth: Add `/user-profile` endpointFrederick Muriuki Muriithi
Display some details for the currently logged in user at the `/user-profile` endpoint.
2022-12-29auth: Redirect on login and cleanupFrederick Muriuki Muriithi
* wqflask/wqflask/oauth2/routes.py: remove unused imports. Add placeholder endpoint "/register-client" * wqflask/wqflask/templates/oauth2/login.html: enable redirect to specific endpoints
2022-12-29auth: Provide decorator to limit access to routesFrederick Muriuki Muriithi
Define the new `oauth2_required` decorator that checks for the existence and validity of a token before allowing access to the given endpoint. Move the `user_logged_in` check to the `checks.py` module. * wqflask/wqflask/oauth2/checks.py: new file * wqflask/wqflask/oauth2/routes.py: import new decorator