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2021-05-08Add issue and PR templatesBonfaceKilz
2021-05-08Add extra procedure for parsing a genotype fileBonfaceKilz
* gn3/computations/parsers.py (parse_genofile): New procedure. * tests/unit/computations/test_parsers.py: New test files for above.
2021-05-08Add extra genotype test fileBonfaceKilz
* tests/unit/test_data/genotype.txt: New file. * tests/unit/test_file_utils.py: Update failing test.
2021-05-08Add python-mysqlclient as a dependencyBonfaceKilz
2021-05-05Merge pull request #9 from genenetwork/Feature/speed-up-correlationBonfaceKilz
Feature/speed up correlation
2021-05-03add default no of coresAlexander Kabui
2021-05-03modify default SQL_URIAlexander Kabui
2021-05-03add trait_id fix mypy issuesAlexander Kabui
2021-05-03minor fixes for tiss correlation tests and namingAlexander Kabui
2021-05-03replace database with connAlexander Kabui
2021-05-02remove trait and dataset blueprintAlexander Kabui
2021-05-02delete dataset and trait filesAlexander Kabui
2021-04-20pep8 formattingAlexander Kabui
2021-04-20add experiment function for computing tissue correlation using multiprocessingAlexander Kabui
2021-04-18refactor:return trait_name in corr_resultsAlexander Kabui
2021-04-17ad pep8 formattingAlexander Kabui
2021-04-17refactor tests for litAlexander Kabui
2021-04-17add sort for correlation resultsAlexander Kabui
refactor return data type for tissue and lit
2021-04-16add benchmark function for sample rAlexander Kabui
2021-04-16benchmark normal function for sample rAlexander Kabui
2021-04-15optimization for sample correlationAlexander Kabui
2021-04-15test endpoint for fetching probeset data typesAlexander Kabui
2021-04-12replace experimental dbAlexander Kabui
2021-04-12fix tests for lit correlationAlexander Kabui
2021-04-12fix merge conflictAlexander Kabui
2021-04-12Integrate correlation APIAlexander Kabui
- add new api for gn2-gn3 sample r integration - delete map for sample list to values - add db util file - add python msql-client dependency - add db for fetching lit correlation results - add unittests for db utils - add tests for db_utils - modify api for fetching lit correlation results - refactor Mock Database Connector and unittests - add sql url parser - add SQL URI env variable - refactor code for db utils - modify return data for lit correlation - refactor tissue correlation endpoint - replace db_instance with conn
2021-04-06add mock db for testsAlexander Kabui
2021-04-06fix DocstringsAlexander Kabui
2021-04-06delete unnecessary functions and commentsAlexander Kabui
2021-04-05fix for fetching dataset traits dataAlexander Kabui
2021-04-04refactor code for trait dataAlexander Kabui
modify unittest and integration tests for datasets
2021-04-04fix:db connectionAlexander Kabui
2021-04-03add tests for getting trait dataAlexander Kabui
2021-04-01add mysqclient to requirements fileAlexander Kabui
2021-03-31add mysqlclient in guixAlexander Kabui
add env variable for GN2_URL
2021-03-31add fetch dataset strain id,strain name and unittestsAlexander Kabui
2021-03-31add temp_db setup and integration testsAlexander Kabui
2021-03-31add datasets functions and endpointsAlexander Kabui
2021-03-30refactor retrieve trait sample data and testsAlexander Kabui
2021-03-30modify getting sample data from dbAlexander Kabui
2021-03-30register trait blueprintAlexander Kabui
2021-03-30initial commit for creating datasetAlexander Kabui
2021-03-30initial commit for creating trait and datasetsAlexander Kabui
2021-03-23Convert Path object to a strBonfaceKilz
* gn3/file_utils.py (cache_ipfs_file): Return a str instead of a path object. * tests/unit/test_file_utils.py: Update failing tests.
2021-03-23Update Gemma docsBonfaceKilz
2021-03-23Update where cached file is storedBonfaceKilz
2021-03-23Use ipfs to get genotype filesBonfaceKilz
2021-03-23Apply auto-pep8 formattingBonfaceKilz
2021-03-23guix.scm: Add missing moduleBonfaceKilz
2021-03-23Add function to cache ipfs filesBonfaceKilz
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