| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2023-05-03 | code refactoring | Alexander_Kabui | |
| 2023-05-02 | integrate lmdb code;remove textfiles fetching | Alexander_Kabui | |
| 2023-05-02 | interface code to read lmdb files | Alexander_Kabui | |
| 2023-05-02 | remove realtime files generation | Alexander_Kabui | |
| 2023-04-28 | Enable passing dataid for correlation results | zsloan | |
| This allows the scatterplots to use edited sample data | |||
| 2023-04-28 | Use cached sample data in scatter plots (when applicable) | zsloan | |
| 2023-04-28 | Cache trait sample data for mapping | zsloan | |
| This is so edited sample values can be used in the additive effect scatterplots | |||
| 2023-04-25 | auth: disable UI elements for non-editable roles | Frederick Muriuki Muriithi | |
| If a role is not user-editable, disable the UI elements that allow editting of the role to prevent that as an option in the first place. | |||
| 2023-04-21 | oauth2: BugFixes: Fix redirect. Add Dataset Name. | Frederick Muriuki Muriithi | |
| 2023-04-21 | oauth2: Update to enable linking of phenotypes. | Frederick Muriuki Muriithi | |
| 2023-04-21 | oauth: Update UI for phenotype resources. | Frederick Muriuki Muriithi | |
| 2023-04-20 | Fix bugs: Add missing module. Make args mandatory | Frederick Muriuki Muriithi | |
| Add missing `wqflask.oauth2.ui` module Make arguments to the menu-generation macro mandatory going forward. | |||
| 2023-04-20 | oauth2: Render UI uniformly across all templates. | Frederick Muriuki Muriithi | |
| 2023-04-19 | oauth2: Provide missing species_name | Frederick Muriuki Muriithi | |
| 2023-04-19 | oauth2: fix bug with error handling. | Frederick Muriuki Muriithi | |
| 2023-04-19 | oauth2: Link the data | Frederick Muriuki Muriithi | |
| 2023-04-19 | oauth2: update UI on successful search. | Frederick Muriuki Muriithi | |
| 2023-04-19 | oauth2: phenotypes: Enable search from user input. | Frederick Muriuki Muriithi | |
| 2023-04-19 | Remove dead text in GeneRIF page | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-04-19 | oauth2: UI: Enable selecting and deselecting items for linking | Frederick Muriuki Muriithi | |
| This commit generalises the code for selecting and deselecting items making it usable even for the phenotype traits. Now we can switch items from the search table to the linking table and vice versa. | |||
| 2023-04-18 | import code cleanup | Alexander_Kabui | |
| 2023-04-18 | metadata caching code integration | Alexander_Kabui | |
| 2023-04-18 | Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into ↵ | Alexander_Kabui | |
| chores/minor-fixes | |||
| 2023-04-18 | Add a web url to genewiki entries for GN | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-04-18 | oauth2: update UI and js to display initial search results. | Frederick Muriuki Muriithi | |
| 2023-04-17 | Add a link to the GN2 GeneWiki page | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-04-17 | Add genewiki page | Munyoki Kilyungi | |
| * wqflask/wqflask/templates/generif.html: New template. * wqflask/wqflask/views.py (display_diffs_users): New route. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-04-17 | oauth2: Build code to do search | Frederick Muriuki Muriithi | |
| At this point, the code fails with a 404, despite the appropriate endpoint existing. Will need further debugging. | |||
| 2023-04-15 | Revert "Fix the way database_connection() is called" | Frederick Muriuki Muriithi | |
| This reverts commit b8b62aea1c7924e2ee7455c6fe8b34eee7cb8e74. We do need to decouple the entire `gn3.db_utils` from the `flask.current_app` object, and as such, the use of `SQL_URI` from the `utility.tools` module in GN2 was on purpose. This is also to help towards fixing issue https://issues.genenetwork.org/issues/bugfix_coupling_current_app_and_db_utils | |||
| 2023-04-14 | Handle errors for group consistent with the UI. | Frederick Muriuki Muriithi | |
| 2023-04-12 | oauth2: Generalise JS code to work for both mRNA and Genotype datasets. | Frederick Muriuki Muriithi | |
| 2023-04-12 | delete dead code | Alexander_Kabui | |
| 2023-04-12 | add code to store metadata in files | Alexander_Kabui | |
| 2023-04-11 | Fix bug where publication years had links even when there's no PMID | zsloan | |
| This was just caused by the correlation code not directly being passed the PMID (and instead only being passed the link and the text), so the logic in the table code needed to be changed to check for the link instead of the PMID | |||
| 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 | |
| 2023-04-11 | modify default textfile path | Alexander_Kabui | |
| 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 | |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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