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path: root/gn3/api/rqtl.py
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2024-09-27Bug: Use absolute path in place of relative path...Prior to this commit, an assumption is made that the application is invoked with the root of the repository being the current working directory. If this assumption is not met, then the system will not find the appropriate path. This commit forces the use of an absolute path, which should help avoid issues with misplaced relative paths. Frederick Muriuki Muriithi
2024-09-12Fix pylint errors....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-09-12Make sure dir exists before running R/qtlPjotr Prins
2024-09-12Replace TMPDIR/output with TMPDIR/gn3 so it is clear where it comes fromPjotr Prins
2024-09-12Make sure TMPDIR directories exist!Pjotr Prins
2024-09-12Move assert_paths_exist into fs_helpersPjotr Prins
2024-09-12Change behavior of do_paths_exist to actually throw useful errorPjotr Prins
2024-09-12Getting Rqtl to run on fallbackPjotr Prins
2024-09-12Move assert_paths_exist into fs_helpersPjotr Prins
2024-09-12Change behavior of do_paths_exist to actually throw useful errorPjotr Prins
2024-07-08Pass output directory to R/qtl script instead of pulling it from the...environment Also fixes issue where the control marker keyword was wrong zsloan
2022-03-22Fixes pylint errorszsloan
2022-03-22Fix issue that causes R/qtl to always run pair-scan even if pair-scan isn't s...zsloan
2022-03-22Added genofile name to inputs for processing R/qtl pair-scan results, since i...zsloan
2022-03-22Fix imports to import both process_rqtl_mapping and process_rqtl_pairscan in ...zsloan
2022-03-22Added pairscan boolean kwarg and process_rqtl_pairscan function for reading i...zsloan
2021-09-03Add covarstruct as a possible keyword for the rqtl_wrapper.R script (not inte...zsloan
2021-06-18Fixed pylint issueszsloan
2021-06-18Fixed issue where all bool kwargs were always being passed to generate_rqtl_c...zsloan
2021-05-25Include code that processes rqtl output files and returns actual results inst...zsloan
2021-05-18Account for boolean kwargs in compute() by storing them in a list, since they...zsloan
2021-05-18Fixed variety of issues detected by pylintzsloan
2021-05-17Read in kwargs fromrequest and pass the command, tmpdir, and kwargs to genera...zsloan
2021-05-17Add rqtl.py for rqtl endpointszsloan