| Age | Commit message (Expand) | Author |
|---|
| 2024-10-02 | Fix pylint failure....* tests/fixtures/rdf.py (rdf_setup): Fix C0301.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-10-02 | feat: cleaner handling of virtuoso process | John Nduli |
| 2024-10-02 | Fix typo in comments....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-10-02 | Spin up a local virtuoso instance to run RDF tests against....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-10-02 | Add virtuoso ini file to be used during testing....tests/fixtures/virtuoso.py: New file.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-10-02 | Set a default password for sparql....* tests/fixtures/rdf.py: Import config.
(get_sparql_auth_conf): Load GN3 config from GN3_SECRETS and GN3_CONF
if the respective envs are set. Set sane defaults for sparql_conf.
(rdf_setup): Remove "fxtr_app_config".
* tests/unit/db/rdf/test_wiki.py (test_get_wiki_entries_by_symbol): Ditto.
(test_get_comment_history): Ditto.
(test_update_wiki_comment): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-28 | Lint: fix some linting errors. | Frederick Muriuki Muriithi |
| 2024-09-27 | Skip failing test. | Frederick Muriuki Muriithi |
| 2024-09-27 | Use existing fixture to retrieve settings. | Frederick Muriuki Muriithi |
| 2024-09-23 | Revert "Add pytest.mark.unit_test for all rdf test-cases."...This reverts commit f6d9b0cfb842b53e8777e9918549f1ed1ee5892e. Failing
tests because of how we run tests using guix.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Add pytest.mark.unit_test for all rdf test-cases....This makes sure that all the test correctly run in CD.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Handle missing GN3_SECRETS for CI testing....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Fix or ignore pylint errors....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Load GN3_SECRETS after loading GN3_CONF settings....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Remove dead comment....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Make sure the the test graph is empty before running rdf tests....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Use test fixtures to set-up a test named graph....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-23 | Add RDF test cases....* pytest.ini: Add rdf pytest marker.
* tests/test_data/ttl-files/test-data.ttl: New file with turtle test
data for RIF editing.
* tests/unit/db/rdf/test_wiki.py (test_sanitize_result): New test
case.
(test_get_comment_history): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-12 | Fix failing tests after merging in Pjotr's pull request. | Frederick Muriuki Muriithi |
| 2024-09-12 | rqtl_wrapper: minor fixes | Pjotr Prins |
| 2024-09-12 | Fix Rqtl test | Pjotr Prins |
| 2024-09-12 | Change behavior of do_paths_exist to actually throw useful error | Pjotr Prins |
| 2024-09-11 | Add test cases for wiki.__sanitize_result....* tests/unit/db/rdf/test_wiki.py (test_sanitize_result): New file.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2024-09-03 | Make pylint fixes. | Alexander_Kabui |
| 2024-09-03 | Add tests for fetching and populating references. | Alexander_Kabui |
| 2024-09-03 | Add unittests for formatting bib info. | Alexander_Kabui |
| 2024-05-27 | Pylint fixes. | Alexander_Kabui |
| 2024-05-27 | Delete llm obsolete unittests | Alexander_Kabui |
| 2024-01-17 | fix pylint errors | Alexander_Kabui |
| 2024-01-17 | temp fix:disable pylint check | Alexander_Kabui |
| 2024-01-17 | Feature/gn llm refactoring (#147)...* refactor code for processing response from fahamu client
* Add tests for gn-llm | Alexander Kabui |
| 2023-10-10 | Remove authentication from GN3...Authentication should be handled by the auth server (gn-auth) and thus, this
commit removes code handling user authentication from the GN3 system.
| Frederick Muriuki Muriithi |
| 2023-09-05 | Fix C3001: Lambda expression assigned to a variable...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-05 | Remove un-necessary string concatenation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-05 | Remove pylint skip...* gn3/auth/authentication/oauth2/models/oauth2token.py
(introspect_token, check_permission): Delete "pylint:
disable=[no-self-use]". R0022: Useless option value for 'disable',
'no-self-use' was moved to an optional extension, see
https://pylint.pycqa.org/en/latest/whatsnew/2/2.14/summary.html#removed-checkers.
* gn3/auth/authentication/oauth2/grants/authorisation_code_grant.py
(delete_authorization_code): Ditto.
* tests/unit/test_heatmaps.py (test_cluster_traits):
Delete "pylint: disable=R0201". R0022: Useless option value for
'disable', 'no-self-use' was moved to an optional extension, see
https://pylint.pycqa.org/en/latest/whatsnew/2/2.14/summary.html#removed-checkers.
* tests/unit/computations/test_partial_correlations.py
(test_tissue_correlation): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-05 | Remove unused import...* tests/unit/test_file_utils.py: Delete gn3.cache_ipfs_file
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-05 | Replace "escape_string" with safe-query parameters...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-05 | Delete IPFS tests...* tests/unit/test_file_utils.py (test_cache_ipfs_file_cache_hit,
test_cache_ipfs_file_cache_miss): Delete.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-17 | Fix tests to work with changes | zsloan |
| 2023-08-04 | Remove unused import | Frederick Muriuki Muriithi |
| 2023-08-04 | Remove tests for deleted function. | Frederick Muriuki Muriithi |
| 2023-08-02 | Remove ORM-dependent `insert` function...Remove the object-relation-mapping dependent `insert` function to prevent it
being used in the code down the line.
| Frederick Muriuki Muriithi |
| 2023-08-02 | Remove ORM-dependent `fetchall` and `fetchone` functions...Remove Object-Relational Mapping dependent function, `fetchall` and `fetchone`
so as to prevent theirs use in the code moving forward.
| Frederick Muriuki Muriithi |
| 2023-07-19 | Extract code dealing with ProbeSets to their own module. | Frederick Muriuki Muriithi |
| 2023-07-11 | Revert "Skip tests broken by Python-3.10 temporarily"...This reverts commit f52247c15f3694f3dd5fd0fd79c3e15376137e07.
| Frederick Muriuki Muriithi |
| 2023-07-05 | Skip tests broken by Python-3.10 temporarily...Skip the tests that have been broken by the migrations to Python-3.10
temporarily, until we can fix them.
| Frederick Muriuki Muriithi |
| 2023-07-05 | Update test: create throw-away variable...* Commit `b529c700` changes the return value to a tuple of values rather than
a single string value. Handle that in the test.
| Frederick Muriuki Muriithi |
| 2023-05-30 | Fix linting errors and failing tests...* scripts/register_sys_admin.py: fix linting error
* tests/unit/auth/fixtures/oauth2_client_fixtures.py: hash client secret in
database. The code expects it hashed in the database.
| Frederick Muriuki Muriithi |
| 2023-05-25 | Set whether resource is publicly viewable on creation | Frederick Muriuki Muriithi |
| 2023-04-25 | auth: Roles: Check for editability...Some roles should not be user-editable, and as such, we need to check before
allowing any edits on such roles. This commit makes that possible.
| Frederick Muriuki Muriithi |
