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2023-03-23oauth2: data: Provide a UI for linking data, with search.Frederick Muriuki Muriithi
Provide a UI for the phenotype datasets with a search interface (currently inactive) that is eventually going to allow for linking the traits to user groups.
2023-03-22Fix search result table widthzsloan
2023-03-21The mean deaults to 'N/A' for phenotypeszsloan
The previous code caused an error when the mean was N/A (when trying to take the float() of it)
2023-03-21Remove session['user_details'] references since they seem to cause an errorzsloan
2023-03-21Replace twitter-post-fetcher with Twitter's provided timeline linkzsloan
2023-03-20Add link to diff page when sample-data is updatedMunyoki Kilyungi
* wqflask/wqflask/metadata_edits.py (update_phenotype): Add url to diff page in flash message. * wqflask/wqflask/templates/edit_phenotype.html: Render flash message with HTML.
2023-03-20Fix minor pep-8 issuesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-03-20Disable editing case-attributesMunyoki Kilyungi
ATM, editing case-attributes is very buggy. * wqflask/tests/integration/wqflask/test_metadata_edits.py: Delete. * wqflask/wqflask/decorators.py: Remove: gn3.authentication.get_groups_by_user_uid import. (case_attributes_edit_access): Delete. * wqflask/tests/integration/wqflask/test_metadata_edits.py: Remove wqflask.decorators.case_attributes_edit_access, gn3.db.case_attributes.get_case_attributes, gn3.db.case_attributes.get_unreviewed_diffs, gn3.db.case_attributes.insert_case_attribute_audit, gn3.db.case_attributes.reject_case_attribute and gn3.db.case_attributes.approve_case_attribute. (display_phenotype_metadata): Remove headers arg when rendering template. (update_phenotype): Remove case attribute headers list when updating a phenotype. (show_case_attribute_columns, update_case_attributes): Delete. (reject_case_attribute_data, approve_case_attribute_data): Ditto. * wqflask/wqflask/templates/edit_phenotype.html: Remove link that shows all the listed case-attributes. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-03-20oauth2: Load menu and populate dropdownFrederick Muriuki Muriithi
In order to enable searching through the existing datasets for linking with the auth system, we need a way to filter the data. In this commit, I load the menu and load it onto a dropdown box as a proof of concept to give an idea of some of the filters I can use down the road to fetch the data. This commit breaks the data-linking code. I will need to rework the data-linking code entirely to get it working again.
2023-03-20oauth2: Pass the offset in the queryFrederick Muriuki Muriithi
2023-03-20oauth2: phenotypes: list/link at trait levelFrederick Muriuki Muriithi
List/link the phenotypes at the trait level rather than at the dataset level.
2023-03-20corrs: Handle JSONDecodeErrorFrederick Muriuki Muriithi
In the case that the JSON output from the correlations computation is malformed, we capture that into a new exception an re-raise it to help with debugging and fixing issues.
2023-03-18oauth2: resources: toggle whether a resource is public or not.Frederick Muriuki Muriithi
2023-03-18oauth2: resources: Disallow duplicate resource names.Frederick Muriuki Muriithi
2023-03-17Fix correlation bug caused by a NULL UPDATE_TIME in the DBzsloan
2023-03-16Make the two Submit Change buttons consistentzsloan
2023-03-16Edit dataset dropdown JS to handle Species sub-categorieszsloan
2023-03-16Change the UI for the phenotype editing pagezsloan
Edit Sample Data and Edit Metadata are now two separate sections, and Edit Sample Data appears first
2023-03-15minor globalsearch enhancementAlexander_Kabui
2023-03-15Change global search form id to gsearchform instead of searchform (since ↵zsloan
searchform is already used for the regular search)
2023-03-15Replace REGEXP with LIKE in regular searcheszsloan
2023-03-15Fix bug caused by RRIDs parseable as intszsloan
2023-03-14fix responsivenessAlexander_Kabui
2023-03-14add shadow and border effect autocompleteAlexander_Kabui
2023-03-10oauth2: Extend scope for GN2 oauth2 client.Frederick Muriuki Muriithi
2023-03-09Merge pull request #772 from genenetwork/chores/code-refactoringAlexander Kabui
Chores/code refactoring
2023-03-09code cleanupchores/code-refactoringAlexander_Kabui
2023-03-09delete recent search handlerAlexander_Kabui
2023-03-09Merge pull request #771 from genenetwork/chores/ui-enhancementsAlexander Kabui
Chores/UI enhancements
2023-03-09fix miniform search idAlexander_Kabui
2023-03-09link to hint page;update form selectorAlexander_Kabui
2023-03-08Add DataAnalyzer.py script to maintenance scriptszsloan
2023-03-08Account for truncated symbol lengths when setting the max_width for the ↵zsloan
symbol column
2023-03-08Change the way table width is set for search results tablezsloan
2023-03-08Merge pull request #770 from genenetwork/feature/search-historyAlexander Kabui
Feature/autocomplete global search
2023-03-08integrate to global searchfeature/search-historyAlexander_Kabui
2023-03-08add autocomplete css codeAlexander_Kabui
2023-03-08add autocomplete js codeAlexander_Kabui
2023-03-08Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into ↵Alexander_Kabui
feature/search-history
2023-03-07fix:Enter key in search field. (#769)Alexander Kabui
* enable search on keypress enter * add default value for search field * forward search queries
2023-03-07oauth2: group_roles: Enable adding/deleting privilegesFrederick Muriuki Muriithi
2023-03-07oauth2: Include 'user' in requested scopes.Frederick Muriuki Muriithi
2023-03-07oauth2: resources: unassign role on resource from user.Frederick Muriuki Muriithi
2023-03-06oauth2: resources: assign role to user on resource.Frederick Muriuki Muriithi
2023-03-06oauth2: resources: List all users with access to the resource.Frederick Muriuki Muriithi
2023-03-06oauth2: group roles: commit missing template.Frederick Muriuki Muriithi
2023-03-03oauth2: group role: View group role details.Frederick Muriuki Muriithi
2023-03-03oauth2: Bugfix: Ensure to send the list correctly.Frederick Muriuki Muriithi
2023-03-03oauth2: enable creation and listing of group roles.Frederick Muriuki Muriithi
2023-03-01Show the log2 of the Mean column when Mean > 100 for Gene global searchzsloan
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