- Feb 14, 2020
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- add script `tests/test_rule_graph/test.sh` to generate a rule graph in `images/rule_graph.svg` - display rule graph created in `README.md` instead of specific workflow DAG - add test script to GitLab CI config - renamed test to create workflow DAG from `test_create_dag_chart` to `test_create_dag_image` (also output file is renamed from `images/workflow_dag.svg` to `images/dag_test_workflow.svg`
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- Feb 04, 2020
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Alex Kanitz authored
`README.md` file describes - aim and background of the project (including the workflow DAG representation) - how to install requirements (including setting up a `conda` environment for the project) - how to execute the workflow run integration test - how to run the workflow on your own samples (including how to auto-generate required params from LabKey metadata) Additional minor changes: - minor changes in various test and related files, including updates of paths - root directory now includes subdirectory `runs/` for a user's workflow runs (contents not version-controlled)
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Alex Kanitz authored
- set up integration test for Snakefile in dedicated folder; current test case was left untouched for the time being, despite requiring large input files - set up DAG chart creation test in dedicated folder; script creates an SVG representation of the workflow DAG at `images/workflow_dag.svg` - both tests have been added to the GitLab CI/CD configuration; the latter test ensures that always the latest version of the - all tests are now located inside subdirectories of `tests/`; test scripts and configuration files for test runs etc. have been moved to the appropriate test directories - for the time being, required input files for each test are placed within the individual test directories; a layout for common test files should be introduced later and paths and bind paths in tests adapted - make script `scripts/labkey_api.py` executable
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- Dec 20, 2019
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BIOPZ-Gypas Foivos authored
Rename snakemake/paired_end.snakemake to snakemake/paired_end.snakefile. Fix wiring of rules. Add fake tests.
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BIOPZ-Gypas Foivos authored
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- Dec 13, 2019
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CJHerrmann authored
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- Feb 19, 2019
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BIOPZ-Gypas Foivos authored
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