| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2025-04-08 | feat: Append GN3 computation completion marker to log file. | Alexander_Kabui | |
| 2025-04-08 | fix: Pylint fix for unused variable. | Alexander_Kabui | |
| 2025-04-07 | Remove debug logging: current_app.logger requires app context. | Frederick Muriuki Muriithi | |
| 2025-04-07 | Log out debug messages separate from active statements. | Frederick Muriuki Muriithi | |
| 2025-04-07 | Split the command if its a single, non-json-parseable string. | Frederick Muriuki Muriithi | |
| 2025-03-27 | feat: Check for founder and covar file in rqtl2 metadata. | Alexander_Kabui | |
| 2025-03-21 | Use HTTPS for LLM endpoint. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-03-18 | Order species by species id. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-03-07 | Merge pull request #218 from genenetwork/chores/refactor-qtl2-script | Alexander Kabui | |
| refactor rqtl2 script. | |||
| 2025-03-07 | refactor function to process scan1 results. | Alexander_Kabui | |
| 2025-03-07 | Convert wikiId and versionId to ints. | Munyoki Kilyungi | |
| This fixes failing tests. * gn3/db/rdf/wiki.py (__sanitize_result): Convert versionId and wiki Id to ints. (get_wiki_entries_by_symbol): Get string representation of VersionId and the wikiId instead of the the URI. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-03-07 | Revert "fix: Replace file path fetching code in rqtl2.py with ↵ | Munyoki Kilyungi | |
| current_app.root_path" This reverts commit e7baf1a4cf05a4e7794a6531c92d367fcd8f1651. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-03-04 | Use self-holsted LLM API end-point. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-03-04 | fix: Replace file path fetching code in rqtl2.py with current_app.root_path | Munyoki Kilyungi (aider) | |
| 2025-02-28 | Eliminate carriage-return and newline characters. | Frederick Muriuki Muriithi | |
| 2025-02-28 | Print out the stack trace to help debug failures. | Frederick Muriuki Muriithi | |
| 2025-02-28 | Fix issues caught by mypy. | Frederick Muriuki Muriithi | |
| 2025-02-28 | Fix linting errors. | Frederick Muriuki Muriithi | |
| 2025-02-26 | feat: Add utility function for reading files and improve logging | Alexander_Kabui | |
| * Add `read_file(file_path)` utility function to streamline file reading. * Updated `run_process()` to return log contents instead of just the log file path. | |||
| 2025-02-25 | fix: handle extra columns in permutations CSV reader to prevent unpacking error. | Alexander_Kabui | |
| 2025-02-24 | Fetch rscript from os env if it isn't set in the app's config. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-02-21 | Fix versioning of WIKI entries. | Munyoki Kilyungi | |
| * gn3/api/metadata_api/wiki.py (edit_wiki)[next_version]: Set to the latest+1 if a comment id exists. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-02-20 | refactor: Skip permutation test when NO_OF_PERMUTATION less than 0. | Alexander_Kabui | |
| 2025-02-19 | fix: Read and parse correct permutation file from R/qtl2. | Alexander_Kabui | |
| 2025-02-19 | fix: Read and parse correct permutation file from R/qtl1 | Alexander_Kabui | |
| 2025-02-10 | feat: Add LMDB sample data retrieval API endpoint with tests | Munyoki Kilyungi (aider) | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2025-02-07 | refactor: Add rqtl2 default method and update unittests. | Alexander_Kabui | |
| 2025-02-07 | feat: Add the qtl to method to be used. | Alexander_Kabui | |
| 2025-02-07 | feat: Enable streaming functionality for rqtl2. | Alexander_Kabui | |
| 2025-02-07 | fix: fix for fetching significance results. | Alexander_Kabui | |
| 2025-02-06 | refactor: code refactoring. | Alexander_Kabui | |
| 2025-02-06 | feat: Include the physical map position in results. | Alexander_Kabui | |
| 2025-02-06 | refactor: Rename pheno_map to physical_map . | Alexander_Kabui | |
| 2025-02-06 | mypy fixes. | Alexander_Kabui | |
| 2025-02-06 | feat: Add functionality to process output to compute endpoint. | Alexander_Kabui | |
| 2025-02-06 | refactor process qtl2 results function to include output reading. | Alexander_Kabui | |
| 2025-02-06 | feat: Add function to process qtl2 output results. | Alexander_Kabui | |
| 2025-02-06 | feat: Add function to process qtl scan results. | Alexander_Kabui | |
| 2025-02-06 | feat: Add function to process permutation results. | Alexander_Kabui | |
| 2025-02-06 | feat: Add function to fetch significance results. | Alexander_Kabui | |
| 2025-02-06 | Refactor: return the relative file to the workspace directory. | Alexander_Kabui | |
| 2025-02-06 | Minor fix. | Alexander_Kabui | |
| 2025-02-06 | Refactor workspace directory creation to use pathlib's mkdir method. | Alexander_Kabui | |
| 2025-02-06 | refactor: Minor cleanup. | Alexander_Kabui | |
| 2025-02-06 | refactor: Refactor run_process function. | Alexander_Kabui | |
| 2025-02-06 | refactor: Add file_path to output only if it is created. | Alexander_Kabui | |
| 2025-02-06 | refactor: Check if data before attempting write operation. | Alexander_Kabui | |
| 2025-02-06 | refactor: return code for Calledprocesserror response. | Alexander_Kabui | |
| 2025-02-06 | refactor: Refactor compute endpoint for rqtl2. | Alexander_Kabui | |
| 2025-02-06 | feat: Add module docstring for rqtl2 computations. | Alexander_Kabui | |
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index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
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