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2022-09-08Replace "g.db" mocks with "database_connection" mocks...* wqflask/tests/unit/base/test_trait.py: Delete "wqflask.app" import. (TestRetrieveTraitInfo.setUp): Delete it. (TestRetrieveTraitInfo.tearDown): Ditto. (TestRetrieveTraitInfo.test_retrieve_trait_info_with_empty_dataset): Replace "g" mock with "database_connection" mock. (test_retrieve_trait_info_with_empty_trait_info): Ditto. (test_retrieve_trait_info_with_non_empty_trait_info): Ditto. (test_retrieve_trait_info_utf8_parsing): Ditto. * wqflask/tests/wqflask/show_trait/test_show_trait.py (TestTraits): (test_get_nearest_marker): Ditto. (test_get_nearest_marker_empty_db): Ditto. Munyoki Kilyungi
2022-09-08Adjust expected table width...* wqflask/tests/wqflask/show_trait/test_show_trait.py (TestTraits.test_get_table_widths): Use new values for the table width to make the tests pass. Munyoki Kilyungi
2022-09-08Condense test-cases for "get_ncbi_summary_request" into one test...* wqflask/tests/wqflask/show_trait/test_show_trait.py: (TestTraits.test_get_ncbi_summary_request_success): Condense this ... (TestTraits.test_get_ncbi_summary_request): ... and this ... (test_get_ncbi_summary_request): ... here. Munyoki Kilyungi
2022-09-08Parametrize test cases for "check_if_attr_exists"...* wqflask/tests/wqflask/show_trait/test_show_trait.py: Import pytest. (TestTraits.test_check_if_attr_exists_truthy): Delete it. (TestTraits.test_check_if_attr_exists_empty_attr): Ditto. (TestTraits.test_check_if_attr_exists_falsey): Ditto. (TestTraits.test_check_if_attr_exists_falsey): Ditto. test_check_if_attr_exists: Add new parametrized test case to test "check_if_attr_exists". Munyoki Kilyungi
2022-09-08Add extra distinct_values and id attributes to test TraitObject...* wqflask/tests/wqflask/show_trait/test_show_trait.py (TraitObject): Add self.id and self.distinct_values. Munyoki Kilyungi
2022-09-08Remove app initialisation in test...* wqflask/tests/wqflask/show_trait/test_show_trait.py: Delete "wqflask.app" import. (TestTraits.setUp): Delete it. (TestTraits.tearDown): Ditto. Munyoki Kilyungi
2022-09-08Move data.gen_menu_json to test_data_set.py...This is done to avoid relative imports. wqflask/tests/unit/base/data.py: Delete it. * wqflask/tests/unit/base/test_data_set.py: Add new variable GEN_MENU_JSON. (TestDataSetTypes.test_data_set_type_with_empty_redis): Upper-case "gen_menu_json" variable. Munyoki Kilyungi
2022-09-08Delete dead imports...* wqflask/base/data_set.py: Remove un-used imports. * wqflask/base/trait.py: Ditto. wqflask/tests/wqflask/show_trait/test_show_trait.py: Ditto. * wqflask/wqflask/show_trait/show_trait.py: Ditto. * wqflask/wqflask/views: Ditto. Munyoki Kilyungi
2022-09-05Update values for "additive" in failing gemma test...* wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py (TestGemmaMapping.test_parse_loco_outputfile_found): Use a halved value in expected_results["additive"]. Munyoki Kilyungi
2022-08-31Add transform parameter to mapping api unit testzsloan
2022-08-31Fix failing api/test_mapping.py testzsloan
2022-08-08remove unnessary append to listAlexander_Kabui
2022-08-08remove test;test is redundantAlexander_Kabui
2022-08-08tests refactoringAlexander_Kabui
2022-06-10Skip failing integration test...ATM, it's hard to by-pass the authentication decorators, and as such, skip this test for. This may be deleted later. BonfaceKilz
2022-06-10Reverse polarity for gemma additive effects in tests...Fixes broken test. See: #89a7868. BonfaceKilz
2022-04-14wqflask: Mock db connection when fetching case attributes...* wqflask/tests/integration/wqflask/test_metadata_edits.py (test_show_case_attributes): Mock "database_connection". Fixes this failing test: <https://ci.genenetwork.org/jobs/genenetwork2/223> BonfaceKilz
2022-04-07Create a new page to display case-attributes and their descriptions...* wqflask/wqflask/metadata_edits.py: Import "gn3.db.sample_data.get_case_attributes". (show_case_attribute_columns): New function/ end-point to show case-attributes. * wqflask/tests/integration/wqflask/test_metadata_edits.py: New integration tests for the above. * wqflask/tests/integration/wqflask/__init__.py: New file. * wqflask/wqflask/templates/case_attributes.html: New template file to display the above. BonfaceKilz
2022-03-22Merge remote-tracking branch 'origin/testing' into feature/add_rqtl_pairscanzsloan
2022-03-17Lint some test filesBonfaceKilz
2022-03-17Fix failing testBonfaceKilz
2022-03-17Skip unittests...These tests touch on core data-structures in gn2; and there's a chance that refactoring said data-structures may break many things. BonfaceKilz
2022-03-17Replace "g.db" object with a proper database connection...* wqflask/tests/unit/wqflask/api/test_correlation.py: Use proper database connection instead of the db connection attached at "g.db". * wqflask/tests/unit/wqflask/snp_browser/test_snp_browser.py: Ditto. * wqflask/wqflask/api/correlation.py: Ditto. * wqflask/wqflask/snp_browser/snp_browser.py: Ditto. BonfaceKilz
2022-01-14Merge branch 'testing' of github.com:genenetwork/genenetwork2 into feature/ad...zsloan
2021-11-04use gn3 importsBonfaceKilz
2021-10-25Update failing tests when testing `get_user_access_roles`BonfaceKilz
2021-10-25Replace "resource_id" with "resource_info" dict...This avoids calling Redis twice when fetching metadata about the resource. BonfaceKilz
2021-10-25Get a users access mask...If a user has several access roles, select the highest role. BonfaceKilz
2021-10-25Add test-cases for `get_user_membership`BonfaceKilz
2021-10-25Move markdown_routes to api/markdown...All new API definitions should be migrated to "wqflask/ api" BonfaceKilz
2021-10-13resolve merge conflictAlexander Kabui
2021-10-12Fixed filename in test_gen_covariates_file; I think that the hash changed bec...zsloan
2021-10-12Fix R/qtl mapping testzsloan
2021-10-12Merge branch 'testing' of github.com:genenetwork/genenetwork2 into feature/ad...zsloan
2021-10-12Fixed test_gen_covariates_filezsloan
2021-10-12Fixed export_mapping_results test in test_run_mapping.pyzsloan
2021-10-09unittest for processing wgcna outputAlexander Kabui
2021-10-06tests: test_run_mapping: Add missing "name" attribute to testsBonfaceKilz
2021-10-06tests: test_run_mapping: Add missing calls...After adding the missing attribute to "self.trait", we need to also need to update some missing calls. BonfaceKilz
2021-10-06tests: test_run_mapping: Fix failing assert when getting perm strataBonfaceKilz
2021-10-06tests: test_run_mapping: Add missing attribute to "self.trait"BonfaceKilz
2021-10-06tests: test_run_mapping: Add missing positional argument "vals_hash"BonfaceKilz
2021-07-12fix merge conflictAlexander Kabui
2021-07-12tests: test_markdown_routes: Remove stubbed out testsBonfaceKilz
2021-07-06replace rpy2 for tissue corrAlexander Kabui
2021-05-27Merge pull request #579 from zsloan/feature/rqtl_with_gn3...Use GN3 API for R/qtlzsloan
2021-05-27Fix the way Mock is initializedzsloan
2021-05-27Change test_rqtl_mapping.py to account for full results being returned from t...zsloan
2021-05-27Fixed way MockGroup was initializedzsloan
2021-05-27Forgot to import dataclasszsloan
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