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2025-02-06feat: Add function to process permutation results.Alexander_Kabui
2025-02-06feat: Add function to fetch significance results.Alexander_Kabui
2025-02-06Refactor: return the relative file to the workspace directory.Alexander_Kabui
2025-02-06Refactor workspace directory creation to use pathlib's mkdir method.Alexander_Kabui
2025-02-06refactor: Minor cleanup.Alexander_Kabui
2025-02-06refactor: Refactor run_process function.Alexander_Kabui
2025-02-06refactor: Add file_path to output only if it is created.Alexander_Kabui
2025-02-06refactor: Check if data before attempting write operation.Alexander_Kabui
2025-02-06refactor: return code for Calledprocesserror response.Alexander_Kabui
2025-02-06feat: Add module docstring for rqtl2 computations.Alexander_Kabui
2025-02-06refactor: remove unused imports.Alexander_Kabui
2025-02-06feat: Add function to write input data to a json file.Alexander_Kabui
2025-02-06feat: Add function to prepare files and workspace directory for computation.Alexander_Kabui
2025-02-06feat: Add utility function to create a file if it does not exist.Alexander_Kabui
2025-02-06feat: Add function to compose an rqtl2 run command.Alexander_Kabui
2025-02-06feat: Add function to validate list of keys in object.Alexander_Kabui
2025-02-06feat: Add function to generate rqtl2 data files.Alexander_Kabui
2025-02-06feat: Add method to write list of data to csv file.Alexander_Kabui
2025-02-06feat: Add computational module for rqtl2.Alexander_Kabui
2025-01-13mypy fixes.Alexander_Kabui
2025-01-13refactor: Returns markers and pseudomarkers as names in pairscan results.Alexander_Kabui
2025-01-09Typo fixes.Alexander_Kabui
2025-01-09refactor: raise and Handle error a app level.Alexander_Kabui
2025-01-09feat: Add a decorator function to enable streaming functinality.Alexander_Kabui
2025-01-09feat: Add function to run an external process and capture result in a file.Alexander_Kabui
2025-01-09feat: Init add streaming module for genenetwork3.Alexander_Kabui
2024-12-17feat: Init integrate streaming functionality to rqtl1.Alexander_Kabui
2024-12-13fix: Fix unused variables pylint.Alexander_Kabui
2024-12-13Fix pylint error line too long.Alexander_Kabui
2024-12-13fix: Fetch the correct value from rqtl output file for permutation.Alexander_Kabui
2024-12-12Remove quote marks for qtl output.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-09-27Bug: Use absolute paths in place of relative paths.Frederick Muriuki Muriithi
Similar issue to commit 11d543eeca08fe0df4bf2be7222234fadb516a51
2024-09-12Fix pylint errors.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-09-12Fix failing tests after merging in Pjotr's pull request.Frederick Muriuki Muriithi
2024-09-12From gn3 only use TMPDIR/gn3 pathsPjotr Prins
2024-09-12Replace TMPDIR/output with TMPDIR/gn3 so it is clear where it comes fromPjotr Prins
2024-09-12Modify script paths so they can be edited in GuixPjotr 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
2024-02-25Disable too-many-arguments for "run_reaper".Munyoki Kilyungi
* gn3/computations/qtlreaper.py: Disable "too-many-arguments" pylint check. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2024-02-19Pass qtlreaper command path as argument to run_reaperzsloan
Originally the system would get the path from the environment
2023-10-27Remove reimport "Optional".Munyoki Kilyungi
* gn3/computations/gemma.py: Delete reimport "Qptional". Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-10-27Make implicit optional type hints PEP 484 compliant.Munyoki Kilyungi
Ran the command: pipx run no_implicit_optional ./ in the root directory.
2023-10-26Fix errors caught by mypy.Frederick Muriuki Muriithi
2023-10-06pylint: fix variable name.Frederick Muriuki Muriithi
2023-10-06Get `CORRELATION_COMMAND` from current_app not `gn3.settings`Frederick Muriuki Muriithi
The default settings in `gn3.settings` are meant to be overridden thus the code should not be importing the setting from there, rather, the code should get its configurations settings from `flask.current_app.config`.
generated by cgit-pink 1.4.1 (git 2.36.1) at 2025-11-29 01:23:18 +0000