snk-cli 0.6.1__tar.gz → 0.6.2__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {snk_cli-0.6.1 → snk_cli-0.6.2}/PKG-INFO +1 -1
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/__about__.py +1 -1
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/config/config.py +4 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/.github/workflows/publish.yml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/.github/workflows/tests.yml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/.gitignore +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/LICENSE.txt +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/README.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/index.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/cli.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/config.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/dynamic_typer.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/options.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/subcommands.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/testing.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/utils.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/validate.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/docs/reference/workflow.md +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/mkdocs.yml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/pyproject.toml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/cli.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/conda.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/config/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/config/utils.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/dynamic_typer.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/options/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/options/option.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/options/utils.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/config.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/env.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/profile.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/run.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/subcommands/script.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/testing.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/utils.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/validate.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/src/snk_cli/workflow.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/conftest.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/artic_v4.1.bed +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/config.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/cov.fasta +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/print_config/Snakefile +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/print_config/cli.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/print_config/config.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/print_config/snk.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/cli.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/config.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/resources/data.txt +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/snk.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/things/__about__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/workflow/Snakefile +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/workflow/envs/wget.yml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/workflow/profiles/base/config.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/workflow/profiles/slurm/config.yaml +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/data/workflow/workflow/scripts/hello.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_SnkConfig.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/__init__.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_dynamic_options.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_profile.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_run.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_snk_config.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_subcommands.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_validate.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_cli/test_workflow_cli.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_conda_env.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_dynamic_typer.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/test_types.py +0 -0
- {snk_cli-0.6.1 → snk_cli-0.6.2}/tests/utils.py +0 -0
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@@ -37,6 +37,9 @@ class SnkConfig:
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skip_missing (bool): Whether to skip missing CLI options. Defaults to False.
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additional_snakemake_args (List[str]): List of additional Snakemake command-line arguments. Defaults to an empty list.
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commands (List[str]): List of subcommands to include in the CLI. Defaults to ["run", "script", "env", "profile", "info", "config"].
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snakefile (Optional[Path]): Path to the Snakefile. Defaults to None.
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configfile (Optional[Path]): Path to the config file. Defaults to None.
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min_snk_cli_version (Optional[str]): Minimum version of the SNK CLI required to run the workflow. Defaults to None.
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cli (dict): Dictionary of CLI options and their values. Defaults to an empty dictionary.
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_snk_config_path (Path): The path to the SNK config file. Defaults to None.
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@@ -73,6 +76,7 @@ class SnkConfig:
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commands: List[str] = field(default_factory=lambda: ["run", "script", "env", "profile", "info", "config"])
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snakefile: Optional[Path] = None
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configfile: Optional[Path] = None
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min_snk_cli_version: Optional[str] = None
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cli: dict = field(default_factory=dict)
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_snk_config_path: Path = None
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