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2022-04-14wqflask: Mock db connection when fetching case attributesBonfaceKilz
* 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>
2022-04-07Create a new page to display case-attributes and their descriptionsBonfaceKilz
* 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.
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 unittestsBonfaceKilz
These tests touch on core data-structures in gn2; and there's a chance that refactoring said data-structures may break many things.
2022-03-17Replace "g.db" object with a proper database connectionBonfaceKilz
* 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.
2022-01-14Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵zsloan
feature/add_rqtl_pairscan
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" dictBonfaceKilz
This avoids calling Redis twice when fetching metadata about the resource.
2021-10-25Get a users access maskBonfaceKilz
If a user has several access roles, select the highest role.
2021-10-25Add test-cases for `get_user_membership`BonfaceKilz
2021-10-25Move markdown_routes to api/markdownBonfaceKilz
All new API definitions should be migrated to "wqflask/ api"
2021-10-13resolve merge conflictAlexander Kabui
2021-10-12Fixed filename in test_gen_covariates_file; I think that the hash changed ↵zsloan
because I changed the test dataset name from 'dataser_1' to 'dataset_1'
2021-10-12Fix R/qtl mapping testzsloan
2021-10-12Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵zsloan
feature/add_rqtl_pairscan
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 callsBonfaceKilz
After adding the missing attribute to "self.trait", we need to also need to update some missing calls.
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_gn3zsloan
Use GN3 API for R/qtl
2021-05-27Fix the way Mock is initializedzsloan
2021-05-27Change test_rqtl_mapping.py to account for full results being returned from ↵zsloan
the GN3 request
2021-05-27Fixed way MockGroup was initializedzsloan
2021-05-27Forgot to import dataclasszsloan
2021-05-27Fixed syntax mistake when creating dataclass in test_rqtl_mapping.pyzsloan
2021-05-27Removed parts of test_rqtl_mapping.py referring to process_perm_results and ↵zsloan
process_rqtl_results since that functionality was moved to GN3
2021-05-27Updated test_run_mapping.py to account for attribute keys being checked as ↵zsloan
lowercase, though not sure if this will fully fix the test
2021-05-27Improved test_rqtl_mapping.py with Bonface's recommendation of uses dataclasseszsloan
2021-05-26tests: test_gen_menu: Remove get_speciesBonfaceKilz
2021-05-22Fixed the mocked return_value for requests.post to fix broken testzsloan
2021-05-22Fixed a couple broken testszsloan
2021-05-22Rewrote test_rqtl_mapping.py, though haven't done tests for all functions yetzsloan
2021-05-10Merge branch 'testing' into feature/integrate-correlation-apiAlexander Kabui
2021-05-08tests: test_gen_menu: Remove app_context initialisationBonfaceKilz
This is no longer required since the global object "Flask.g.db" is no longer coupled to the gen_menu module.
2021-05-08tests: test_gen_menu: Update failing testsBonfaceKilz
Update tests to use (and mock) the injected MySQL connection object.
2021-05-05tests: test_species: Update failing testsBonfaceKilz
2021-05-05templates: test_species: Add tests for instantiating ChromosomesBonfaceKilz
2021-05-05tests: test_species: Test that IndChromosome instantiates correctlyBonfaceKilz
2021-05-05tests: test_species: Add test cases for TestTheSpecies classBonfaceKilz
2021-04-30autopep8: Run autopep8 100 times with target rulesBonfaceKilz
Rules used are: E20,E211,E22,E224,E224,E225,E226,E227,E228,E231,E241,E242, E251,E252,E26,E265,E266,E27,E301,E302,E303,E304,E305,E306, E401,E501,E70,E701,W291,W292,W293,W391,W504,E101,E11,E121, E122,E123,E124,E125,E126,E127,E128,E129,E131,E133
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-23 20:25:12 +0000