| Age | Commit message (Expand) | Author |
|---|---|---|
| 2022-11-10 | Migrations: migration for `role_privileges` table...* tests/unit/auth/test_create_table_migrations.py: new migration * tests/unit/auth/test_migrations_indexes.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: migration for 'generic_roles' table...* migrations/auth/20221110_06_Pq2kT-create-generic-roles-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: migration for 'roles' table...* migrations/auth/20221110_05_BaNtL-create-roles-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test new migration * tests/unit/auth/test_migrations_indexes.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: migration for 'genotype_resources' table...* migrations/auth/20221110_04_6PRFQ-create-genotype-resources-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: Add migration for 'phenotype_resources' table...* migrations/auth/20221110_03_ka3W0-create-phenotype-resources-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test for new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: Add migration for mrna_resources table...* migrations/auth/20221110_02_z1dWf-create-mrna-resources-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test for new migration | Frederick Muriuki Muriithi |
| 2022-11-10 | Migrations: Add migration for 'resources' table...* gn3/migrations.py: Minor change * migrations/auth/20221110_01_WtZ1I-create-resources-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-09 | Migrations: Add `resource_meta` field to `resource_categories` table | Frederick Muriuki Muriithi |
| 2022-11-09 | Tests: Provide backend fixture to (apply|rollback)_single_migration | Frederick Muriuki Muriithi |
| 2022-11-08 | Migrations: Improve `resource_categories` data tests....* tests/unit/auth/test_migration_init_data_in_resource_categories_table.py: Test that the data is initialised properly. Test that rollback works as expected. | Frederick Muriuki Muriithi |
| 2022-11-08 | Migrations: Init `resource_categories` with initial categories...* migrations/auth/20221108_04_CKcSL-init-data-in-resource-categories-table.py: new migration. * tests/unit/auth/test_migration_init_data_in_resource_categories_table.py: test new migration. | Frederick Muriuki Muriithi |
| 2022-11-08 | Migrations: Create `resource_categories` table....* migrations/auth/20221108_03_Pbhb1-create-resource-categories-table.py: new migration. * tests/unit/auth/test_create_table_migrations.py: test new migration. | Frederick Muriuki Muriithi |
| 2022-11-08 | Migrations: Create `privileges` table....* migrations/auth/20221108_02_wxTr9-create-privileges-table.py: new migration * tests/unit/auth/test_create_table_migrations.py: test new migration | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Fix test name. | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Fix typo: remove variable from quotes. | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Generalise testing 'CREATE TABLE' migrations...* gn3/settings.py: Omit trailing slash * tests/unit/auth/test_create_table_migrations.py: Generalise testing migrations that create tables. * tests/unit/auth/test_create_user_credentials_table.py: delete * tests/unit/auth/test_migration_create_users_table.py: delete | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Tests the credentials check system...* gn3/auth/authentication.py: Fix issues caught by tests * tests/unit/auth/test_credentials.py: Add fixtures and tests for credentials checking | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Test migration to create user_credentials table...* tests/unit/auth/test_create_user_credentials_table.py: new tests | Frederick Muriuki Muriithi |
| 2022-11-08 | Tests: Separate *ALL* unit test fixtures from auth-specific ones...* tests/unit/auth/conftest.py: add fixtures specific to auth * tests/unit/auth/test_migration_create_users_table.py: import from new fixtures module * tests/unit/conftest.py: remove auth-specific fixtures from *ALL* unit tests fixture module. | Frederick Muriuki Muriithi |
| 2022-11-03 | Add credentials checking...* gn3/auth/authentication.py: new function `credentials_in_database` * gn3/auth/authentication/__init__.py: replace package with module * gn3/settings.py: new `AUTH_MIGRATIONS` configuration variable * migrations/auth/20221103_02_sGrIs-create-user-credentials-table.py: new migration * tests/unit/auth/test_credentials.py: test the `credentials_in_database` function * tests/unit/conftest.py: more test fixtures | Frederick Muriuki Muriithi |
| 2022-11-03 | Rename migration test. | Frederick Muriuki Muriithi |
| 2022-11-03 | Initialise the Auth(entic|oris)ation packages...Initialise the authentication/authorisation system packages and set up the initial database migrations to set up the system. * README.md: Add documentation on migrations * gn3/auth/__init__.py: init package * gn3/auth/authentication/__init__.py: init package * gn3/auth/authorisation/__init__.py: init package * gn3/migrations.py: provide migration utilities * migrations/auth/20221103_01_js9ub-initialise-the-auth-entic-oris-ation-database.py: new migration * tests/unit/auth/test_init_database.py: test new migration applies and rolls back as expected * tests/unit/conftest.py: fixtures for unit tests * yoyo.auth.ini: basic configuration for yoyo-migration for auth system migrations | Frederick Muriuki Muriithi |
| 2022-11-02 | Add tests for monadic_dict...* tests/unit/test_monads.py (test_monadic_dict): Add basic test-cases for MonadicDict. | Munyoki Kilyungi |
| 2022-08-30 | Update test: include port in parsed data from mysql uri | Frederick Muriuki Muriithi |
| 2022-08-10 | update test;parse output | Alexander_Kabui |
| 2022-07-29 | Fix failing tests...* gn3/computations/correlations.py: rename function * mypy.ini: deactivate mypy error about missing imports * tests/integration/test_correlation.py: mock correct function * tests/unit/computations/test_correlation.py: test correct function | Frederick Muriuki Muriithi |
| 2022-07-22 | linting and tests fixes | Alexander_Kabui |
| 2022-07-22 | mypy pylint fixes | Alexander_Kabui |
| 2022-07-22 | add unittests | Alexander_Kabui |
| 2022-06-29 | use explicit parameters | Alexander_Kabui |
| 2022-06-29 | fix issues | Alexander_Kabui |
| 2022-06-29 | lint test file | Alexander |
| 2022-06-29 | add tests | Alexander |
| 2022-06-29 | add test data | Alexander |
| 2022-06-29 | parse output data | Alexander |
| 2022-06-29 | init test correlation rust module | Alexander |
| 2022-06-21 | tests: test_file_utils: Replace pytest.mark.skip with unittest.skip..."python setup.py test" won't skip "pytest.mark.skip" thereby leading to build failure when you try to package gn3. | BonfaceKilz |
| 2022-06-21 | test_file_utils: Disable test cases for "cache_ipfs_file"...* tests/unit/test_file_utils.py (test_cache_ipfs_file_cache_hit): Skip it. (test_cache_ipfs_file_cache_miss): Ditto. | BonfaceKilz |
| 2022-05-30 | Pass trait data as args to `fix_strains` and fix some bugs...The `fix_strains` function works on the trait data, not the basic trait info. This commit fixes the arguments passed to the function, and also some bugs in the function. | Frederick Muriuki Muriithi |
| 2022-05-27 | Move sql for CRUD operations on case-attrs from gn2 to gn3 | BonfaceKilz |
| 2022-05-27 | Move sql for modifying case-attributes from gn2 to gn3 | BonfaceKilz |
| 2022-05-27 | Return all the results from CaseAttributes column as is...* gn3/db/sample_data.py: Remove "collections" import. Add "Optional" import. (get_case_attributes): Return the results of "fetchall" from the case attributes. * tests/unit/db/test_sample_data.py (test_get_case_attributes): Update failing test. | BonfaceKilz |
| 2022-05-26 | Add Endpoint to get menu items for use in UI | Frederick Muriuki Muriithi |
| 2022-04-12 | Delete "get_allowable_sampledata_headers"...* gn3/csvcmp.py (get_allowable_sampledata_headers): Delete it. * tests/unit/test_csvcmp.py: Remove "get_allowable_sampledata_headers" import. (test_get_allowable_csv_headers): Delete it. | BonfaceKilz |
| 2022-04-12 | Test that a carriage return is removed when generating csv...* tests/unit/db/test_sample_data.py: import "get_trait_csv_sample_data". (test_get_trait_csv_sample_data): New test function. | BonfaceKilz |
| 2022-04-07 | Use case attribute id inside brackets if present during insertions...* gn3/db/sample_data.py (delete_sample_data): If an id is present in the column header, use it. * tests/unit/db/test_sample_data.py (test_delete_sample_data): Update tests to capture the above. | BonfaceKilz |
| 2022-04-07 | Use case attribute id inside brackets if present during insertions...* gn3/db/sample_data.py (insert_sample_data): If an id is present in the column header, use it. * tests/unit/db/test_sample_data.py (test_insert_sample_data): Update tests to capture the above. | BonfaceKilz |
| 2022-04-07 | Use case attribute id inside brackets if present during updates...* gn3/db/sample_data.py: Import "parse_csv_column". (update_sample_data): If an id is present in the column header, use it. * tests/unit/db/test_sample_data.py (test_update_sample_data): Update tests to capture the above. | BonfaceKilz |
| 2022-04-07 | Add method for fetching the case_attributes...* gn3/db/sample_data.py (get_case_attributes): New function. * tests/unit/db/test_sample_data.py (test_get_case_attributes): Test case for the above. | BonfaceKilz |
| 2022-04-07 | Add method for parsing a csv header from uploaded sample-data file...* gn3/csvcmp.py (parse_csv_column): New function. * tests/unit/test_csvcmp.py: Test case for the above. | BonfaceKilz |
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