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2021-06-18add tests to setup packagesAlexander Kabui
2021-06-18add types and dataset namesAlexander Kabui
2021-06-18initial commit for queries perfomance testsAlexander Kabui
2021-06-18db: test_db: Add extra variable in test data for "id"BonfaceKilz
2021-06-18Rename json_data column to json_diff_dataBonfaceKilz
2021-06-18gn3: db: Fix how columns from tables is resolvedBonfaceKilz
2021-06-18gn3: db: Add "id_" property to metadata_audit class and mappingBonfaceKilz
2021-06-18tests: test_db: Add a test-case for fetchallBonfaceKilz
2021-06-18gn3: db: Add "fetchall" method.BonfaceKilz
2021-06-18gn3: metadata_audit: Make props for MetadataAudit class optionalBonfaceKilz
2021-06-18gn3: db: Make "WHERE" clause optional...* gn3/db/__init__.py (fetchone): Make "WHERE" an Optional arg. BonfaceKilz
2021-06-18gn3: db: Use correct DATACLASSMAP entry from metadata_auditBonfaceKilz
2021-06-18tests: test_db: Rename TestPhenotypeBonfaceKilz
2021-06-18tests: test_phenotype: Rename to test_dbBonfaceKilz
2021-06-18gn3: db: sort importsBonfaceKilz
2021-06-18gn3: db: Remove "escape_string" from imports...We use prepared statements, so no need to have this. BonfaceKilz
2021-06-18Use prepared statements for FETCH sql functionBonfaceKilz
2021-06-18gn3: db: Replace items() with keys()...* gn3/db/__init__.py (diff_from_dict): We only use the keys of the dict! BonfaceKilz
2021-06-18Use prepared statements for UPDATE sql functionBonfaceKilz
2021-06-18tests: test_audit: Update test case to check for prepared statementsBonfaceKilz
2021-06-18gn3: db: Add new function for doing sql INSERTBonfaceKilz
2021-06-18sql: Add a new folder that houses sql statements for new tablesBonfaceKilz
2021-06-18Add data structures for the table metadata_auditBonfaceKilz
2021-06-18gn3: db: Add spacing before around "AND" in sql clauseBonfaceKilz
2021-06-18unit: test_phenotypes: Test for multiple "WHERE" clausesBonfaceKilz
2021-06-18Get the diff between 2 dicts and return that as a dictBonfaceKilz
2021-06-18gn3: db: Return None if data and where are emptyBonfaceKilz
2021-06-18fix index error (#16)Alexander Kabui
2021-06-18Move the methods, "update" and "fetch", to gn3.dbBonfaceKilz
2021-06-18db: phenotypes: Fix publication_mappingBonfaceKilz
2021-06-18db: phenotypes: Fix typoBonfaceKilz
2021-06-18tests: test_phenotype: Add function that tests "fetchone"BonfaceKilz
2021-06-18db: phenotypes: Add function for fetching a single result...* gn3/db/phenotypes.py (fetchone): New function. BonfaceKilz
2021-06-18db: phenotypes: Add a dataclass map...Maps a string to it's dataclass. BonfaceKilz
2021-06-18db: phenotypes: Add Publication table mappingBonfaceKilz
2021-06-18db: phenotypes: Rename phenotype_column_mappingBonfaceKilz
2021-06-18db: phenotypes: Add Publication dataclass and mappingBonfaceKilz
2021-06-18db: phenotypes: Update failing testsBonfaceKilz
2021-06-18db: phenotypes: Generalise the update function...* gn3/db/phenotypes.py (update_phenotype): Delete it. (update): New, more general function. BonfaceKilz
2021-06-18db: phenotypes: Map a table to it's relevant dict mappingBonfaceKilz
2021-06-18db: phenotypes: Add type for Dataclass...See: https://www.py4u.net/discuss/188952 BonfaceKilz
2021-06-18db: phenotypes: Put mapping def after dataclassBonfaceKilz
2021-06-18db: phenotypes: Add phenotype table mappingBonfaceKilz
2021-06-18db: phenotypes: Add dataclass to represent PublishXRefBonfaceKilz
2021-06-18db: phenotype: Make "pylint: disable=[R0902]" global for fileBonfaceKilz
2021-06-18tests: test_phenotypes: New test cases for loading phenotypesBonfaceKilz
2021-06-18db: phenotypes: Add a way of updating the Phenotype table...* gn3/db/phenotypes.py (Phenotype): New dataclass. (update_phenotype): New function. [phenotype_column_mapping]: New variable. BonfaceKilz
2021-06-18Fixed issue where all bool kwargs were always being passed to generate_rqtl_c...zsloan
2021-06-18Added option for enabling permutation strata...Fixed issue where covariates with numerical names were being ignored Fixed issue where the hash filename wasn't being used for the permutation output zsloan
2021-06-18Add rqtl_wrapper.R script and necessary imports to guix.scmzsloan
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