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2024-08-28Restore collections endpointszsloan
Import was removed in commit 7c77ff91f6530aca0865bd13025811f2f93e3541 because it wasn't being used in views.py, but it was providing the collections endpoints albeit indirectly. This commit makes it somewhat explicit that it is a needed module.
2024-08-28Bug: Compute numeric timestamp for the claims.Frederick Muriuki Muriithi
2024-08-28Check if case attribute for RRID is a list, to prevent it being added twice ↵zsloan
in situations where a sample appears in both the parent/f1 file and the .geno file
2024-08-28Change default for Mean Expr filter to OR for correlations to avoid ↵zsloan
excluding any results when the page first loads
2024-08-28Remove styling for search field.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-08-28Check metadata exists before setting 'editable' field in get_dataset.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-08-28Revert "Feature/gnqa search history"Alexander Kabui
2024-05-29Add htmx js api for delete functionality.Alexander_Kabui
2024-05-29integrate gnqa history delete functionality.Alexander_Kabui
2024-05-29Handle attributeError when getting error codes.Alexander_Kabui
2024-05-28BugFix: return correct status code for generic exceptions handler.Alexander_Kabui
2024-05-28Fix bug: Update DOM correctly when rating error occurs.Alexander_Kabui
2024-05-27Mark answer and references as safe to render a tags.Alexander_Kabui
2024-05-24Add UI code for gnqa history search delete functionality.Alexander_Kabui
2024-05-23Update endpoints and add search history functionality.Alexander_Kabui
2024-05-22View file code cleanup for gnqa.Alexander_Kabui
2024-05-22Refactor template code for gnqa search historyAlexander_Kabui
2024-05-14Use correct URL when redirecting user after a new registration.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-05-14Bug: fix issue form submission happening twiceAlexander_Kabui
2024-05-14Revert "Disable gnqa functionality."Munyoki Kilyungi
This reverts commit 01eba6e9b54e45bc937983e33b439a353118de2c.
2024-05-14Consistently use the same OAuthSession clientFrederick Muriuki Muriithi
2024-05-14Enable client to automatically request a refresh token.Frederick Muriuki Muriithi
2024-05-14Redirect to index rather than no-longer supported loginFrederick Muriuki Muriithi
Redirect to index of the site rather that the no-longer supported "Password Grant"-using login page. Disable the login route entirely.
2024-05-13Disable gnqa functionality.Alexander_Kabui
* to test the functionality use ga.genenetwork.org
2024-05-09Remove debug statements.Alexander_Kabui
2024-05-09Improve error messaging for errors in gn fahamu UI.Alexander_Kabui
2024-05-07Merge pull request #844 from genenetwork/feature/gnqa-ui-revampAlexander Kabui
Use HTMX Js api to toggle upvote and downvote functionality.
2024-05-07Use HTMX Js api to toggle upvote and downvote functionality.Alexander_Kabui
2024-05-06Use correct link to point to xapian search.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Point the history to the upstream git repository.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Remove unused imports.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Use a dataset's label instead of it's id when fetching auth details.Munyoki Kilyungi
* gn2/wqflask/views.py (get_dataset): Use a dataset's label as it's identifier. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Pass JWT tokens to gn3.Munyoki Kilyungi
* gn2/wqflask/edit.py (save): Pass the JWT from gn-auth to GN3. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Revert "Create constructors for encoding and decoding a token."Munyoki Kilyungi
This reverts commit e7a3bf22da1b63a01343f2cd30cd13c234fe508c.
2024-04-30Make returning an json object from oauth2_get optional.Munyoki Kilyungi
* gn2/wqflask/oauth2/client.py (oauth2_get): Add a jsonify_p key word that defaults to False. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Remove unused imports.Munyoki Kilyungi
* gn2/wqflask/edit.py: Delete subprocess, Paht, Either, Left, Right. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Delete __run__cmd__.Munyoki Kilyungi
* gn2/wqflask/edit.py (__run_cmd__): Delete. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Remove methods for fetching a dataset's metadata edit history.Munyoki Kilyungi
* gn2/wqflask/edit.py (__fetch_dataset_git_history__): Delete (view_history): Delete. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Delete function for saving metadata.Munyoki Kilyungi
* gn2/wqflask/edit.py (save_dataset_metadata): Delete. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Create a JWT to pass in secinfo to a GN3 editing endpoint.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-30Create constructors for encoding and decoding a token.Munyoki Kilyungi
* gn2/tests/unit/wqflask/oauth2/(__init__.py, test_tokens.py): Test cases for jwt token creation. * gn2/wqflask/oauth2/tokens.py (JWTToken): New module for creating jwt tokens. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-04-25Merge pull request #841 from genenetwork/feature/implement-new-qnqa-ui-templateAlexander Kabui
Feature/implement new qnqa UI template
2024-04-24Bug: use dict object on Response object.Frederick Muriuki Muriithi
2024-04-24Fetch message for authlib errors.Frederick Muriuki Muriithi
2024-04-24Send assertion as a string, not bytes.Frederick Muriuki Muriithi
2024-04-24Use app's logger rather than root logger.Frederick Muriuki Muriithi
2024-04-24DEBUG: log out request detailsFrederick Muriuki Muriithi
There is a failure on CI/CD that is not obvious - the logs should help with debugging the issue.
2024-04-24Setup loggingFrederick Muriuki Muriithi
Add logging to genenetwork2
2024-04-23Create an endpoint for gnqa test templateAlexander_Kabui
2024-04-23Add implementation for new gnqa template.Alexander_Kabui
* This is a separate interface from gnqa main page for testing.