| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2023-04-11 | Fix the way database_connection() is called | zsloan | |
| I think it now gets the SQL_URI from settings | |||
| 2023-04-11 | Fix indentation for conn.commit() | zsloan | |
| 2023-04-10 | Add UI for searching and linking mRNA Assay datasets. | Frederick Muriuki Muriithi | |
| 2023-04-10 | Do search. Filter out selected datasets. | Frederick Muriuki Muriithi | |
| Enable search when user types in search box. Filter out any selected datasets. | |||
| 2023-04-08 | oauth2: Link the Genotype datasets. | Frederick Muriuki Muriithi | |
| 2023-04-07 | Move JS to external file. Generalise functions. | Frederick Muriuki Muriithi | |
| Move the javascript to an external file to ease development. Generalise some functions to make it easier to reuse the code down the line. | |||
| 2023-04-06 | Commit updates for phenotype/publication metadata | zsloan | |
| 2023-04-06 | `flask.current_app.config["SQL_URI"]` ==> `utility.tools.SQL_URI` | Frederick Muriuki Muriithi | |
| Genenetwork2 configs are a tad weird, and instead of using the configs in `flask.current_app`, we need to use those in `utility.tools`. | |||
| 2023-04-06 | correlations: Provide more output to enable debug of errors. | Frederick Muriuki Muriithi | |
| 2023-04-06 | Remove use of deprecated `gn3.db_utils.database_connector` function. | Frederick Muriuki Muriithi | |
| Remove use of deprecated function and fix a myriad of bugs that rise from its removal. Issue: https://issues.genenetwork.org/issues/bugfix_coupling_current_app_and_db_utils | |||
| 2023-04-06 | oauth2: UI - Enable auto-selection of datasets to be linked | Frederick Muriuki Muriithi | |
| When a user selects a dataset in the search table, automatically add it to the link table and remove it from the search table. | |||
| 2023-04-05 | oauth2: UI - Retain look and feel without using jQuery DataTables | Frederick Muriuki Muriithi | |
| Simplify the implementation by dropping the use of the jQuery DataTables plugin - this avoids a lot of arising bugs while retaining the UI look and feel until we have something working. | |||
| 2023-04-05 | oauth2: UI - Autoselect on user click | Frederick Muriuki Muriithi | |
| Try auto-selecting datasets on user click: not successful at this point. There are some weird bugs with the DataTables that I have not been able to resolve yet. | |||
| 2023-04-05 | oauth2: UI - retain data in table attributes | Frederick Muriuki Muriithi | |
| Since the table data could change depending on user input, save the state in the `data-*` attributes to enable update of tables on changes. | |||
| 2023-04-04 | oauth2: Provide UI for linking genotype datasets. | Frederick Muriuki Muriithi | |
| 2023-04-03 | Add conn.commit() for metadata edits | zsloan | |
| 2023-03-28 | Re-add md5.min.js to search result template | zsloan | |
| 2023-03-28 | Only include 'cytochrome AND P450' as part of the placeholder text | zsloan | |
| 2023-03-25 | oauth2: Add UI to use to link data | Frederick Muriuki Muriithi | |
| 2023-03-24 | oauth2: data: setup search as user types | Frederick Muriuki Muriithi | |
| Filter out data as the user types, with a short delay to prevent searching on each and every character. | |||
| 2023-03-23 | oauth2: 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. | |||
| 2023-03-22 | Fix search result table width | zsloan | |
| 2023-03-21 | The mean deaults to 'N/A' for phenotypes | zsloan | |
| The previous code caused an error when the mean was N/A (when trying to take the float() of it) | |||
| 2023-03-21 | Remove session['user_details'] references since they seem to cause an error | zsloan | |
| 2023-03-21 | Replace twitter-post-fetcher with Twitter's provided timeline link | zsloan | |
| 2023-03-20 | Add link to diff page when sample-data is updated | Munyoki 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. | |||
| 2023-03-20 | Fix minor pep-8 issues | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-03-20 | Disable editing case-attributes | Munyoki 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> | |||
| 2023-03-20 | oauth2: Load menu and populate dropdown | Frederick 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. | |||
| 2023-03-20 | oauth2: Pass the offset in the query | Frederick Muriuki Muriithi | |
| 2023-03-20 | oauth2: phenotypes: list/link at trait level | Frederick Muriuki Muriithi | |
| List/link the phenotypes at the trait level rather than at the dataset level. | |||
| 2023-03-20 | corrs: Handle JSONDecodeError | Frederick 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. | |||
| 2023-03-18 | oauth2: resources: toggle whether a resource is public or not. | Frederick Muriuki Muriithi | |
| 2023-03-18 | oauth2: resources: Disallow duplicate resource names. | Frederick Muriuki Muriithi | |
| 2023-03-17 | Fix correlation bug caused by a NULL UPDATE_TIME in the DB | zsloan | |
| 2023-03-16 | Make the two Submit Change buttons consistent | zsloan | |
| 2023-03-16 | Edit dataset dropdown JS to handle Species sub-categories | zsloan | |
| 2023-03-16 | Change the UI for the phenotype editing page | zsloan | |
| Edit Sample Data and Edit Metadata are now two separate sections, and Edit Sample Data appears first | |||
| 2023-03-15 | minor globalsearch enhancement | Alexander_Kabui | |
| 2023-03-15 | Change global search form id to gsearchform instead of searchform (since ↵ | zsloan | |
| searchform is already used for the regular search) | |||
| 2023-03-15 | Replace REGEXP with LIKE in regular searches | zsloan | |
| 2023-03-15 | Fix bug caused by RRIDs parseable as ints | zsloan | |
| 2023-03-14 | fix responsiveness | Alexander_Kabui | |
| 2023-03-14 | add shadow and border effect autocomplete | Alexander_Kabui | |
| 2023-03-10 | oauth2: Extend scope for GN2 oauth2 client. | Frederick Muriuki Muriithi | |
| 2023-03-09 | code cleanupchores/code-refactoring | Alexander_Kabui | |
| 2023-03-09 | delete recent search handler | Alexander_Kabui | |
| 2023-03-09 | fix miniform search id | Alexander_Kabui | |
| 2023-03-09 | link to hint page;update form selector | Alexander_Kabui | |
| 2023-03-08 | Account for truncated symbol lengths when setting the max_width for the ↵ | zsloan | |
| symbol column | |||
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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