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2021-05-19Merge branch 'main' of https://github.com/genenetwork/genenetwork3 into featu...zsloan
2021-05-19Added R and r-qtlPjotr Prins
2021-05-19More SQL optimization trialsPjotr Prins
2021-05-19Fix SQL queryPjotr Prins
2021-05-19SQL query gives different resultPjotr Prins
2021-05-19New SQL approachPjotr Prins
2021-05-18Added test for compose_rqtl_cmd in tests/unit/test_commands.pyzsloan
2021-05-18Removed len from this if statement, since an empty list evaluates to False by...zsloan
2021-05-18Added unit test for computations/rqtl.pyzsloan
2021-05-18Account for boolean kwargs in compute() by storing them in a list, since they...zsloan
2021-05-18Account for boolean kwargs in compose_rqtl_cmdzsloan
2021-05-18Fixed generate_rqtl_cmd to make the kwarg hash from a combination of keywords...zsloan
2021-05-18Slow SQL: add notePjotr Prins
2021-05-18Add original SQL queryPjotr Prins
2021-05-18Notes on SQL queryPjotr Prins
2021-05-18Fixed variety of issues detected by pylintzsloan
2021-05-17Created compose_rqtl_command and generate_rqtl_command to create the actual c...zsloan
2021-05-17Read in kwargs fromrequest and pass the command, tmpdir, and kwargs to genera...zsloan
2021-05-17Added RQTL_WRAPPER_CMD (which is fetched from environment) in settings.pyzsloan
2021-05-17Add rqtl.py for rqtl endpointszsloan
2021-05-17Register rqtl blueprintzsloan
2021-05-17Merge pull request #11 from genenetwork/feature/minor-fixes...Feature/minor fixesBonfaceKilz
2021-05-15resolve merge conflictAlexander Kabui
2021-05-15Merge branch 'main' into feature/minor-fixesAlexander Kabui
2021-05-15index lit tuple resultAlexander Kabui
2021-05-14READMEPjotr Prins
2021-05-13tests: test_general: Add test case for run_r_qtl endpointBonfaceKilz
2021-05-13Add end-point for running an rQTL program...* gn3/api/general.py (run_r_qtl): New function. * gn3/settings.py: New variable. BonfaceKilz
2021-05-13Rename file_utils to fs_helpers...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... BonfaceKilz
2021-05-13computations: correlations: Apply pep-8BonfaceKilz
2021-05-12delete unused functionsAlexander Kabui
2021-05-12rename lit_correlation_for_trait_list to lit_correlation_for_traitAlexander Kabui
2021-05-12rename tissue_correlation_for_trait_list with tissue_correlation_for_traitAlexander Kabui
2021-05-12rename p_val ro tissue_p_value for tissue_resultsAlexander Kabui
2021-05-10tests: test_species: Add test for `get_all_species`BonfaceKilz
2021-05-10db: species: Add method for fetching all speciesBonfaceKilz
2021-05-10tests: test_gemma: Add TMPDIR to test_client()BonfaceKilz
2021-05-10setup.py: Add gn3.api to packagesBonfaceKilz
2021-05-10setup.py: Remove gn3.utility from packagesBonfaceKilz
2021-05-10guix.scm: Add missing comma in propagated-inputBonfaceKilz
2021-05-08guix.scm: Add python-numpy and python-requestsBonfaceKilz
2021-05-08setup.py: Create basic setup fileBonfaceKilz
2021-05-08Fix typoBonfaceKilz
2021-05-08tests: test_species: New testsBonfaceKilz
2021-05-08db: species: Fetch chromosomes using a group or species name...* gn3/db/species.py (get_chromosome): New function. BonfaceKilz
2021-05-08gn3: db_utils: Remove mypy ignore stub...MySQLdb is already ignored in ".mypy.ini", added in 88c33df. BonfaceKilz
2021-05-08Ignore missing stub imports from MySQLdbBonfaceKilz
2021-05-08Fix pep-8 errorsBonfaceKilz
2021-05-08db: traits: Add extra method for looking up webqtl datasetsBonfaceKilz
2021-05-08db: traits: Update method for inserting publication methodBonfaceKilz
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