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2020-11-10Added CSS file for all pages that include a table of traitszsloan
2020-11-05Converted correlation table for ProbeSet target datasets to use the JSON inpu...zsloan
2020-11-05Added some additional necessary fields to generate_corr_json in show_corr_res...zsloan
2020-11-05Removed html from generate_corr_json since that will be done by the column de...zsloan
2020-11-05Imported Scroller and used it with correlation page tablezsloan
2020-11-04Changed numeric-html sorting for the Tissue/Lit r columns to natural-minus-na......* wqflask/wqflask/templates/correlation_page.html - Replaced numeric-html sorting with natural-minus-na for the lit/tissue r columns zsloan
2020-11-04Merge pull request #475 from Alexanderlacuna/test-showtrait...Add more tests for show trait moduleBonfaceKilz
2020-11-04correct a typoAlexanderlacuna
2020-11-04remove extra whitespaceAlexanderlacuna
2020-11-04remove whitespace in line 119-120Alexanderlacuna
2020-11-04remove whitespaceAlexanderlacuna
2020-11-04remove whitespace and assertIsAlexanderlacuna
2020-11-03Merge pull request #479 from zsloan/bug/haplotype_analyst_error_fix...Bug/haplotype analyst error fixzsloan
2020-11-03Changed the syntax for the "sort" function in the docstring of GeneralObject ......* wqflask/base/GeneralObject.py - edited docstring to be correct for Python 3 zsloan
2020-11-03Fixed a sort used when doing the haplotype analysis to be compatible with Pyt......* wqflask/wqflask/marker_regression/display_mapping_results.py - The arguments for sort are different in Python 3, so it was changed to be compatible zsloan
2020-11-03Merge pull request #478 from zsloan/loading_page_n_fix...Joined sample names in primary_samples and all_samples with commas be…zsloan
2020-11-03Joined sample names in primary_samples and all_samples with commas because th......* wqflask/wqflask/show_trait/show_trait.py primary_samples and all_samples passed as hidden form inputs now have names split by commas so they can be counted correctly when displaying the N on the mapping loading screen zsloan
2020-11-03Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into te...Alexanderlacuna
2020-11-03remove unnecessary commentsAlexanderlacuna
2020-11-03add pep8 formattingAlexanderlacuna
2020-11-03add tests for the get_categorical_variables functionAlexanderlacuna
2020-11-03switch from assertFalse to assertIsAlexanderlacuna
2020-11-03switch from assertTrue/False to assertIs to make the tests tighterAlexanderlacuna
2020-11-03use assertTrue and assertFalse in while testing booleanAlexanderlacuna
2020-11-02Merge pull request #476 from zsloan/correlation_errors_fix...Correlation errors fixzsloan
2020-11-02Created function for encoding the column value as bytes when fetching from th......* wqflask/utility/redis_tools.py - Created function load_json_from_redis that encodes the key (column_value) when fetching a value from the JSON pulled from Redis zsloan
2020-11-02Changed correlation page logic to skip over traits that share fewer than 6 sa......* wqflask/wqflask/correlation/show_corr_results.py - Moved the num_overlap check so that it never attempts to calculate the correlation if it's too low + checked if trait_object is None in the main loop (since it would be returned as None if the user doesn't have permissions zsloan
2020-11-02add better formattingAlexanderlacuna
2020-11-02add function docstringAlexanderlacuna
2020-11-02add tests for show trait moduleAlexanderlacuna
2020-10-31Removed a line adding the ceiling of the Max LRS to the Y axis, since it has ......* wqflask/wqflask/marker_regression/display_mapping_results.py - Removed a line adding the ceiling of the max LRS/LOD value to the Y axis zsloan
2020-10-31remove redundant classesAlexanderlacuna
2020-10-31use descriptive variable namesAlexanderlacuna
2020-10-31Use more descriptive variable and class namesAlexanderlacuna
2020-10-30add test for get_export_metadataAlexanderlacuna
2020-10-30Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into te...Alexanderlacuna
2020-10-29Fixed issue with single-chromosome mapping after the bootstrap fix and fixed ......* wqflask/wqflask/marker_regression/display_mapping_results.py - Cast self.qtlresults 'chr' as a string since the comparison between it and the chromosome names was faililng due to numeric chromosomes being int type + used a list comprehension that converts None to an empty string when creating a comma-joined string from the list of mapping output files zsloan
2020-10-29Merge branch 'testing' of github.com:genenetwork/genenetwork2 into reaper_boo...zsloan
2020-10-29add test for show_traitAlexanderlacuna
2020-10-29Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into te...Alexanderlacuna
2020-10-29Merge pull request #469 from BonfaceKilz/bug/fix-cookies-verification...Bug/Fix cookie verification bugBonfaceKilz
2020-10-29resolve merge conflictAlexanderlacuna
2020-10-29format fileAlexanderlacuna
2020-10-29remove print statement in for loopAlexanderlacuna
2020-10-29add test for show_trait/export_trait_dataAlexanderlacuna
2020-10-29Merge pull request #471 from BonfaceKilz/bug/replace-map-on-strip-method...Bug/Replace map on strip with a list comprehension that calls strip()BonfaceKilz
2020-10-28Merge pull request #470 from zsloan/mapping_chr_view_fix...Fixed error when zooming into a chromosome when mappingzsloan
2020-10-28A non-string being used as a paramter in HT.Link caused an error after the Py......* wqflask/wqflask/marker_regression/display_mapping_results.py - cast theGO["snpCount"] as a string zsloan
2020-10-29Replace map on strip with a list comprehension that calls strip()...* scripts/maintenance/readProbeSetSE_v7.py: In Python3 you can't map string.strip on a list of strings. Instead use a list comprehension and apply strip() on each element of the list. * wqflask/wqflask/marker_regression/plink_mapping.py: Ditto. * wqflask/wqflask/snp_browser/snp_browser.py: Ditto. BonfaceKilz
2020-10-28Use latin-1 encoding when converting hmac secret to bytes...* wqflask/utility/hmac.py (hmac_creation): Use latin-1 when serializing the hmac secret. This ensures that the behaviour of *verify_cookie* remains the same as in the python2 tip. BonfaceKilz
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