looper 2.0.2__tar.gz → 2.0.3__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.
- {looper-2.0.2/looper.egg-info → looper-2.0.3}/PKG-INFO +1 -1
- {looper-2.0.2 → looper-2.0.3}/looper/_version.py +1 -1
- {looper-2.0.2 → looper-2.0.3}/looper/cli_pydantic.py +1 -1
- {looper-2.0.2 → looper-2.0.3}/looper/conductor.py +1 -0
- {looper-2.0.2 → looper-2.0.3}/looper/project.py +17 -7
- {looper-2.0.2 → looper-2.0.3/looper.egg-info}/PKG-INFO +1 -1
- {looper-2.0.2 → looper-2.0.3}/LICENSE.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/MANIFEST.in +0 -0
- {looper-2.0.2 → looper-2.0.3}/README.md +0 -0
- {looper-2.0.2 → looper-2.0.3}/logo_looper.svg +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/__init__.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/__main__.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/cli_divvy.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/command_models/DEVELOPER.md +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/command_models/README.md +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/command_models/__init__.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/command_models/arguments.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/command_models/commands.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/const.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_config.yaml +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/localhost_bulker_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/localhost_docker_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/localhost_singularity_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/localhost_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/lsf_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/sge_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/slurm_singularity_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/default_config/divvy_templates/slurm_template.sub +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/divvy.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/exceptions.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/footer.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/footer_index.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/head.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/index.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/logo.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/navbar.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/navbar_links.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/navbar_list_parent.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/object.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/project_object.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/sample.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/status.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/status_table.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates/status_table_no_links.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/footer.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/footer_index.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/head.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/index.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/logo.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/navbar.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/navbar_links.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/navbar_list_parent.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/object.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/project_object.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/sample.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/status.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/status_table.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/jinja_templates_old/status_table_no_links.html +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/looper.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/parser_types.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/pipeline_interface.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/plugins.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/processed_project.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/schemas/divvy_config_schema.yaml +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/schemas/pipeline_interface_schema_generic.yaml +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/schemas/pipeline_interface_schema_project.yaml +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/schemas/pipeline_interface_schema_sample.yaml +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper/utils.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper.egg-info/SOURCES.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper.egg-info/dependency_links.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper.egg-info/entry_points.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper.egg-info/requires.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/looper.egg-info/top_level.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/requirements/requirements-all.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/requirements/requirements-doc.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/requirements/requirements-test.txt +0 -0
- {looper-2.0.2 → looper-2.0.3}/setup.cfg +0 -0
- {looper-2.0.2 → looper-2.0.3}/setup.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/tests/test_clean.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/tests/test_comprehensive.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/tests/test_desired_sample_range.py +0 -0
- {looper-2.0.2 → looper-2.0.3}/tests/test_natural_range.py +0 -0
@@ -1,6 +1,6 @@
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Metadata-Version: 2.4
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Name: looper
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Version: 2.0.
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Version: 2.0.3
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Summary: A pipeline submission engine that parses sample inputs and submits pipelines for each sample.
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Home-page: https://github.com/pepkit/looper
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Author: Nathan Sheffield, Vince Reuter, Michal Stolarczyk, Johanna Klughammer, Andre Rendeiro
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__version__ = "2.0.
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__version__ = "2.0.3"
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# You must change the version in parser = pydantic_argparse.ArgumentParser in cli_pydantic.py!!!
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prog="looper",
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description="Looper: A job submitter for Portable Encapsulated Projects",
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add_help=True,
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version="2.0.
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version="2.0.3",
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)
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parser = add_short_arguments(parser, ArgumentEnum)
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"config_file": psm.config_path,
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"output_schema": psm.cfg["_schema_path"],
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"pephub_path": psm.cfg["pephub_path"],
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"flag_file_dir": psm.cfg["_config"].data.get("flag_file_dir"),
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}
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filtered_namespace = {k: v for k, v in full_namespace.items() if v}
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return YAMLConfigManager(filtered_namespace)
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except KeyError:
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flag_file_dir = None
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try:
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pephub_path = expandpath(pipestat_config_dict["pephub_path"])
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if is_pephub_registry_path(pephub_path):
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pipestat_config_dict.update({"pephub_path": pephub_path})
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else:
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_LOGGER.warning(
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msg=f"Warning: PEPhub path provided is NOT a PEPhub registry {pephub_path}"
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)
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except KeyError:
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pephub_path = None
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# Pipestat_dict_ is now updated from all sources and can be written to a yaml.
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pipestat_config_path = os.path.join(
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output_dir,
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def make_set(items):
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items = [items]
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items = list(map(str, items)) # list(int(items[0]))
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pass
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return items
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Name: looper
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Summary: A pipeline submission engine that parses sample inputs and submits pipelines for each sample.
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Home-page: https://github.com/pepkit/looper
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Author: Nathan Sheffield, Vince Reuter, Michal Stolarczyk, Johanna Klughammer, Andre Rendeiro
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