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2021-07-20Add test for code to move over from GN1Muriithi Frederick Muriuki
Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * .gitignore: ignore emacs temporary files * gn3/computations/correlations2.py: add a dummy function * tests/unit/computations/test_correlation.py: add unit tests for the function As part of the move of the clustering and heatmap code over from GN1 to GN3, this commit begins by providing some unit tests for the correlation function used to ensure that the implementation that is built up here corresponds, and produces the same results as the original. This tests and the function might change in the new system, but for now, we try and maintain bug-to-bug compatibility.
2021-07-10Fix pylint issuesBonfaceKilz
2021-07-10db: test_db: Test that a fetch is correct when columns are specifiedBonfaceKilz
2021-06-29tests: test_commands: Add extra check for when an error occursBonfaceKilz
2021-06-29Add a diffing functionBonfaceKilz
For now the diff function uses the Linux tool "diff" to generate the diff since it is efficient and straightforward. * gn3/computations/diff.py (generate_diff): New function. * tests/unit/computations/test_diff.py: Test cases for ☝🏾.
2021-06-20merge mainAlexander Kabui
2021-06-20make requested changes to biweightAlexander Kabui
2021-06-18Fixed another error where test_generate_rqtl_command didn't include the ↵zsloan
filename argument (not sure why running unit tests locally doesn't detect this)
2021-06-18Fixed file type from json to csv for test_generate_rqtl_commandzsloan
2021-06-18Fixed test_rqtl.py to include Rscript in the commandzsloan
2021-06-18Fixed test_compose_rqtl_command test; forgot to include Rscript in the commandzsloan
2021-06-18Change test_compose_rqtl_command in test_commands.py to have different ↵zsloan
arguments to hopefully avoid github's pylint 'duplicate code' complaint Changed some parameters in test_compose_rqtl_cmd to avoid pylint complaining about duplicate code
2021-06-18db: test_db: Add extra variable in test data for "id"BonfaceKilz
2021-06-18Rename json_data column to json_diff_dataBonfaceKilz
2021-06-18tests: test_db: Add a test-case for fetchallBonfaceKilz
2021-06-18tests: test_db: Rename TestPhenotypeBonfaceKilz
2021-06-18tests: test_phenotype: Rename to test_dbBonfaceKilz
2021-06-18Use prepared statements for FETCH sql functionBonfaceKilz
2021-06-18Use prepared statements for UPDATE sql functionBonfaceKilz
2021-06-18tests: test_audit: Update test case to check for prepared statementsBonfaceKilz
2021-06-18Add data structures for the table metadata_auditBonfaceKilz
2021-06-18unit: test_phenotypes: Test for multiple "WHERE" clausesBonfaceKilz
2021-06-18Get the diff between 2 dicts and return that as a dictBonfaceKilz
2021-06-18fix index error (#16)Alexander Kabui
2021-06-18Move the methods, "update" and "fetch", to gn3.dbBonfaceKilz
2021-06-18tests: test_phenotype: Add function that tests "fetchone"BonfaceKilz
2021-06-18db: phenotypes: Update failing testsBonfaceKilz
2021-06-18tests: test_phenotypes: New test cases for loading phenotypesBonfaceKilz
2021-06-14add biweight r script and testsAlexander Kabui
2021-06-07db: test_db: Add extra variable in test data for "id"BonfaceKilz
2021-06-07Rename json_data column to json_diff_dataBonfaceKilz
2021-06-07tests: test_db: Add a test-case for fetchallBonfaceKilz
2021-06-07tests: test_db: Rename TestPhenotypeBonfaceKilz
2021-06-07tests: test_phenotype: Rename to test_dbBonfaceKilz
2021-06-03Use prepared statements for FETCH sql functionBonfaceKilz
2021-06-03Use prepared statements for UPDATE sql functionBonfaceKilz
2021-06-03tests: test_audit: Update test case to check for prepared statementsBonfaceKilz
2021-06-03Add data structures for the table metadata_auditBonfaceKilz
2021-06-03unit: test_phenotypes: Test for multiple "WHERE" clausesBonfaceKilz
2021-06-03Get the diff between 2 dicts and return that as a dictBonfaceKilz
2021-05-30fix index error (#16)Alexander Kabui
2021-05-26Move the methods, "update" and "fetch", to gn3.dbBonfaceKilz
2021-05-20tests: test_phenotype: Add function that tests "fetchone"BonfaceKilz
2021-05-20db: phenotypes: Update failing testsBonfaceKilz
2021-05-20tests: test_phenotypes: New test cases for loading phenotypesBonfaceKilz
2021-05-18Added test for compose_rqtl_cmd in tests/unit/test_commands.pyzsloan
2021-05-18Added unit test for computations/rqtl.pyzsloan
2021-05-15Merge branch 'main' into feature/minor-fixesAlexander Kabui
2021-05-15index lit tuple resultAlexander Kabui
2021-05-13Rename file_utils to fs_helpersBonfaceKilz
Generally avoid naming things with a "utils" prefix/ suffix since it encourages contributors to dump any new functions there; and over time, as the code grows, things get messy...
generated by cgit v1.2.3 (git 2.44.0) at 2024-10-19 21:28:43 +0000