.bandit
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.gitignore
CHANGELOG.rst
Jenkinsfile
Makefile
README.rst
pyproject.toml
pytype.cfg
setup.py
.github/CODEOWNERS
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.github/workflows/build.yml
.github/workflows/deploy.yml
src/easylink/__about__.py
src/easylink/__init__.py
src/easylink/_version.py
src/easylink/cli.py
src/easylink/configuration.py
src/easylink/graph_components.py
src/easylink/implementation.py
src/easylink/implementation_metadata.yaml
src/easylink/pipeline.py
src/easylink/pipeline_graph.py
src/easylink/pipeline_schema.py
src/easylink/rule.py
src/easylink/runner.py
src/easylink/step.py
src/easylink.egg-info/PKG-INFO
src/easylink.egg-info/SOURCES.txt
src/easylink.egg-info/dependency_links.txt
src/easylink.egg-info/entry_points.txt
src/easylink.egg-info/not-zip-safe
src/easylink.egg-info/requires.txt
src/easylink.egg-info/top_level.txt
src/easylink/images/spark_cluster/Dockerfile
src/easylink/images/spark_cluster/README.md
src/easylink/pipeline_schema_constants/__init__.py
src/easylink/pipeline_schema_constants/development.py
src/easylink/pipeline_schema_constants/integration_test.py
src/easylink/steps/dev/README.md
src/easylink/steps/dev/build-containers-local.sh
src/easylink/steps/dev/build-containers-remote.sh
src/easylink/steps/dev/test.py
src/easylink/steps/dev/input_data/create_input_files.ipynb
src/easylink/steps/dev/input_data/input_file_1.csv
src/easylink/steps/dev/input_data/input_file_1.parquet
src/easylink/steps/dev/input_data/input_file_2.csv
src/easylink/steps/dev/input_data/input_file_2.parquet
src/easylink/steps/dev/python_pandas/README.md
src/easylink/steps/dev/python_pandas/dummy_step.py
src/easylink/steps/dev/python_pandas/python_pandas.def
src/easylink/steps/dev/python_pyspark/README.md
src/easylink/steps/dev/python_pyspark/dummy_step.py
src/easylink/steps/dev/python_pyspark/python_pyspark.def
src/easylink/steps/dev/r/README.md
src/easylink/steps/dev/r/dummy_step.R
src/easylink/steps/dev/r/r-image.def
src/easylink/utilities/__init__.py
src/easylink/utilities/data_utils.py
src/easylink/utilities/general_utils.py
src/easylink/utilities/paths.py
src/easylink/utilities/spark.smk
src/easylink/utilities/validation_utils.py
tests/__init__.py
tests/conftest.py
tests/e2e/test_easylink_run.py
tests/e2e/test_step_types.py
tests/integration/test_snakemake.py
tests/integration/test_snakemake_slurm.py
tests/integration/test_snakemake_spark.py
tests/specifications/common/environment_local.yaml
tests/specifications/common/input_data.yaml
tests/specifications/common/pipeline.yaml
tests/specifications/e2e/environment_slurm.yaml
tests/specifications/e2e/pipeline.yaml
tests/specifications/e2e/pipeline_expanded.yaml
tests/specifications/integration/environment_spark_slurm.yaml
tests/specifications/integration/pipeline.yaml
tests/specifications/integration/pipeline_spark.yaml
tests/unit/__init__.py
tests/unit/conftest.py
tests/unit/test_cli.py
tests/unit/test_config.py
tests/unit/test_data_utils.py
tests/unit/test_general_utils.py
tests/unit/test_graph_components.py
tests/unit/test_implementation.py
tests/unit/test_pipeline.py
tests/unit/test_pipeline_graph.py
tests/unit/test_pipeline_schema.py
tests/unit/test_rule.py
tests/unit/test_runner.py
tests/unit/test_step.py
tests/unit/test_validations.py
tests/unit/rule_strings/implemented_rule_local.txt
tests/unit/rule_strings/implemented_rule_slurm.txt
tests/unit/rule_strings/pipeline_local.txt
tests/unit/rule_strings/pipeline_slurm.txt
tests/unit/rule_strings/target_rule.txt
tests/unit/rule_strings/validation_rule.txt