gen3-dataops-toolkit 5.0.1__tar.gz → 5.0.2__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.
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/PKG-INFO +1 -1
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/pyproject.toml +1 -1
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/utils/athena_utils.py +22 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/README.md +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/__init__.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/__init__.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/__init__.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/aws_quiet.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/dispatch.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/helptext.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/registry.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/resolve.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/runner.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/_internal/safety.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/config_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/delete_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/dict_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/ec2_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/indexd_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/jobs.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/k8s.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/main.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/metadata.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/pipeline_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/release_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/study_cmds.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/cli/synth.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/config.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/contexts.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/import_order.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/indexd/__init__.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/indexd/file_access.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/indexd/indexd_registrar.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/ingest/ingest.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/resolver.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/delete/delete_all_metadata_for_project.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/delete/delete_metadata.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/delete/delete_metadata_by_guid.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/delete/delete_synth_metadata_by_version.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/dictionary/deploy_dd.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/dictionary/pull_dict.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/dictionary/upload_dictionary.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/indexd/register_indexd.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/indexd/verify_file_access.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/k8s_ops/argocd_restart_etl.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/k8s_ops/argocd_restart_ms.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/k8s_ops/argocd_restart_schema.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/k8s_ops/login_to_pod.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/k8s_ops/restart_etl_and_ms.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/synthetic_data/delete_synth_metadata_sheepdog.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/synthetic_data/full_deploy_dd_and_synth.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/synthetic_data/generate_synth_metadata.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/synthetic_data/upload_synth_metadata_sheepdog.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/upload/metadata/upload_all_studies.sh +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/services/upload/metadata/upload_metadata.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/studies.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/upload/__init__.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/upload/metadata_deleter.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/upload/metadata_submitter.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/upload/upload_synthdata_s3.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/utils/dbt_utils.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/utils/release_writer.py +0 -0
- {gen3_dataops_toolkit-5.0.1 → gen3_dataops_toolkit-5.0.2}/src/g3dt/validate/validate.py +0 -0
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logger.info(f"Object created at s3://{s3_bucket}/{s3_object_key}")
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def construct_data_import_order(s3_uri: str) -> list:
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"""Submission order (parents first) of the dictionary bundle at ``s3_uri``.
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Kept for the aws-gen3-pipeline release-export Glue job
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(``write_data_release_to_json.py``), which imports this name from here to
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write each release's ``DataImportOrder.txt``. 5.0.0 moved the derivation
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to :mod:`g3dt.import_order` and dropped the name, so any deployment with
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``toolkitVersion >= 5.0.0`` failed its release export with
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Delegates to :func:`g3dt.import_order.derive_import_order` (a topological
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sort of the raw bundle). Compared with the pre-5.0 gen3_validator order it
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omits the unsubmittable ``program`` node and does not force
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``core_metadata_collection`` last; both are valid submission orders and
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the upload only uses the file to sequence the node JSONs it finds.
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"""
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from g3dt.validate.validate import load_schema_from_s3_uri
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return derive_import_order(load_schema_from_s3_uri(s3_uri))
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def write_release_jsons_to_s3(s3_bucket, release_id, study_id, table_name, json_data,
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s3_client=None, key_prefix="release_jsons"):
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"""
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