| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2023-08-02 | Use correct variable | Frederick Muriuki Muriithi | |
| After copying the calls to assign appropriate roles to the admin in the script, I forgot to update the variable name. This commit fixes that. | |||
| 2023-08-02 | Fix module name. | Frederick Muriuki Muriithi | |
| 2023-08-02 | Assign `group-leader` role to the admin for automatic group. | Frederick Muriuki Muriithi | |
| 2023-07-31 | Fix typing issue | Frederick Muriuki Muriithi | |
| 2023-07-31 | Fix linting and typing issues. | Frederick Muriuki Muriithi | |
| 2023-07-31 | Fix bugs. Return resource without data items. | Frederick Muriuki Muriithi | |
| * Fix bugs introduced while attempting pagination. * Return resource object without attached data items. | |||
| 2023-07-31 | Paginate the resource data items. | Frederick Muriuki Muriithi | |
| 2023-07-26 | Fix variable name. | Frederick Muriuki Muriithi | |
| 2023-07-26 | Remove debug statement. | Frederick Muriuki Muriithi | |
| 2023-07-26 | Fetch `metadata_audit` trail with direct query functions. | Frederick Muriuki Muriithi | |
| 2023-07-26 | Function to create a metadata audit trail. | Frederick Muriuki Muriithi | |
| 2023-07-26 | Merge pull request #126 from BonfaceKilz/fix/pin-python-3.9 | BonfaceKilz | |
| Roll back to python 3.9 in .guix-channel | |||
| 2023-07-26 | Roll back to python 3.9 in .guix-channel | Munyoki Kilyungi | |
| 2023-07-21 | Add some debug utilities. | Frederick Muriuki Muriithi | |
| 2023-07-21 | Update a Publication in the database. | Frederick Muriuki Muriithi | |
| 2023-07-21 | Fetch a publication by its PubMed ID | Frederick Muriuki Muriithi | |
| 2023-07-21 | Rename function: fetch_publication ==> fetch_publication_by_id | Frederick Muriuki Muriithi | |
| 2023-07-19 | Make repository a guix channel. | Arun Isaac | |
| * .guix-channel: New file. * guix.scm: Move to ... * .guix/genenetwork3-package.scm: ... here. Convert into a module with public package variables. | |||
| 2023-07-19 | Extract code dealing with ProbeSets to their own module. | Frederick Muriuki Muriithi | |
| 2023-07-19 | Extract reusable code to separate module | Frederick Muriuki Muriithi | |
| Extract the reusable function into a separate `query_tools` module for use in other modules. | |||
| 2023-07-18 | Bug: Change from `_id` to `id_` to avoid downstream breakage. | Frederick Muriuki Muriithi | |
| The downstream code expects `id_` not `_id`. | |||
| 2023-07-18 | Fix wrong import, and typing issues. | Frederick Muriuki Muriithi | |
| 2023-07-18 | Fetch a single publication by `PublicationId` | Frederick Muriuki Muriithi | |
| 2023-07-18 | Fetch metadata for a single phenotype. | Frederick Muriuki Muriithi | |
| 2023-07-18 | Fetch single phenotype trait by `dataset_id` and `trait_name`. | Frederick Muriuki Muriithi | |
| 2023-07-18 | Bug: Fetch group name by dataset_id | Frederick Muriuki Muriithi | |
| Change the code to fetch the group name by the dataset ID, since according to usage[1] of the `retrieve_group_name` function, the value passed in is the `dataset_id` and not the `group_id`. Change the name from `retrieve_group_name` to `retrieve_phenotype_group_name` to more clearly indicate that this function concerns itself with the groups that relate to phenotypes. [1](https://github.com/genenetwork/genenetwork2/blob/1bbb0430732b7fa5102d7dcbda80ebda252f5424/wqflask/wqflask/metadata_edits.py) | |||
| 2023-07-17 | Fix dict key name | Frederick Muriuki Muriithi | |
| Remove extra colon (:) at the end of the name that was leading to the number of cases not being presented as expected. | |||
| 2023-07-12 | Bug: Set the `data_exists` variable within the context manager | Frederick Muriuki Muriithi | |
| The `cursor.fetchone()` call that was used as the condition to the `if` was called outside of the context manager, and therefore would always give a non-truthy value at best and an inconsistent result at worst. This commit gets the value before the context manager has exited and stores it for later use. | |||
| 2023-07-12 | Bug: Retrieve configs from app, not environment | Frederick Muriuki Muriithi | |
| Retrieve the configuration values from the application object, not from the environment. We are assured of having the configuration values set in the application - we do not have that assurance for the environment. | |||
| 2023-07-12 | Move documentation comment to beginning of function | Frederick Muriuki Muriithi | |
| 2023-07-11 | Revert "Skip tests broken by Python-3.10 temporarily" | Frederick Muriuki Muriithi | |
| This reverts commit f52247c15f3694f3dd5fd0fd79c3e15376137e07. | |||
| 2023-07-11 | Trigger CI | Munyoki Kilyungi | |
| 2023-07-06 | Provide the client_id as part of the post request. | Frederick Muriuki Muriithi | |
| 2023-07-05 | Skip tests broken by Python-3.10 temporarily | Frederick Muriuki Muriithi | |
| Skip the tests that have been broken by the migrations to Python-3.10 temporarily, until we can fix them. | |||
| 2023-07-05 | Update test: create throw-away variable | Frederick Muriuki Muriithi | |
| * Commit `b529c700` changes the return value to a tuple of values rather than a single string value. Handle that in the test. | |||
| 2023-07-04 | Fix minor UI bug | Frederick Muriuki Muriithi | |
| 2023-07-03 | Spruce up UI | Frederick Muriuki Muriithi | |
| Make UI somewhat consistent with the GN2 UI. | |||
| 2023-07-03 | Enable deletion of OAuth2 clients. | Frederick Muriuki Muriithi | |
| 2023-06-30 | Edit some of the details of OAuth2 clients | Frederick Muriuki Muriithi | |
| 2023-06-30 | List all OAuth2 clients. | Frederick Muriuki Muriithi | |
| 2023-06-23 | Fetch all collections, rename variables | Frederick Muriuki Muriithi | |
| Fetch from `__REDIS_COLLECTION_KEY__` not `"collections"` to ensure all collections are retrieved correctly. Rename from `__*_DOC__` to `__REDIS_*_KEY__` to more clearly express what the variables are about. | |||
| 2023-06-20 | Fix conflicts | zsloan | |
| 2023-06-20 | Bug: Don't overwrite/delete old collections | Frederick Muriuki Muriithi | |
| 2023-06-15 | Fetch genotypes from virtuoso | Munyoki Kilyungi | |
| * gn3/api/metadata.py: Import get_genotype_metadata. (genotype): New end-point. * gn3/db/rdf.py (get_phenotype_metadata): New function. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-06-13 | Namespace session variable | Frederick Muriuki Muriithi | |
| Extract the functions acting on the session into a separate module and namespace the session variable to prevent conflicts. | |||
| 2023-06-12 | Delete unused import | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-06-12 | Fetch phenotypes from virtuoso | Munyoki Kilyungi | |
| * gn3/api/metadata.py: Import get_phenotype_metadata. (phenotype): New end-point. * gn3/db/rdf.py (get_phenotype_metadata): New function. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-06-12 | Correct publication function docstring | Munyoki Kilyungi | |
| * gn3/api/metadata.py (publication): Update docstring. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-06-12 | Delete unused get_trait_metadata function | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-06-08 | Fix bugs with accessing/creating collections | zsloan | |
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index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
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