gen3-dataops-toolkit 3.7.1__tar.gz → 3.7.3__tar.gz

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Files changed (56) hide show
  1. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/PKG-INFO +1 -1
  2. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/pyproject.toml +1 -1
  3. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/synth.py +6 -2
  4. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/synthetic_data/upload_synth_metadata_sheepdog.py +14 -0
  5. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/README.md +0 -0
  6. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/__init__.py +0 -0
  7. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/__init__.py +0 -0
  8. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/__init__.py +0 -0
  9. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/dispatch.py +0 -0
  10. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/registry.py +0 -0
  11. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/resolve.py +0 -0
  12. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/runner.py +0 -0
  13. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/_internal/safety.py +0 -0
  14. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/config_cmds.py +0 -0
  15. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/delete_cmds.py +0 -0
  16. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/dict_cmds.py +0 -0
  17. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/ec2_cmds.py +0 -0
  18. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/indexd_cmds.py +0 -0
  19. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/jobs.py +0 -0
  20. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/k8s.py +0 -0
  21. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/main.py +0 -0
  22. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/metadata.py +0 -0
  23. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/pipeline_cmds.py +0 -0
  24. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/cli/release_cmds.py +0 -0
  25. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/config.py +0 -0
  26. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/indexd/__init__.py +0 -0
  27. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/indexd/file_access.py +0 -0
  28. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/indexd/indexd_registrar.py +0 -0
  29. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/ingest/ingest.py +0 -0
  30. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/resolver.py +0 -0
  31. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/delete/delete_all_metadata_for_project.py +0 -0
  32. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/delete/delete_metadata.sh +0 -0
  33. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/delete/delete_metadata_by_guid.py +0 -0
  34. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/dictionary/deploy_dd.sh +0 -0
  35. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/dictionary/pull_dict.sh +0 -0
  36. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/dictionary/upload_dictionary.py +0 -0
  37. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/indexd/register_indexd.py +0 -0
  38. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/indexd/verify_file_access.py +0 -0
  39. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/k8s_ops/argocd_restart_etl.sh +0 -0
  40. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/k8s_ops/argocd_restart_ms.sh +0 -0
  41. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/k8s_ops/argocd_restart_schema.sh +0 -0
  42. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/k8s_ops/login_to_pod.sh +0 -0
  43. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/k8s_ops/restart_etl_and_ms.sh +0 -0
  44. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/synthetic_data/delete_synth_metadata_sheepdog.py +0 -0
  45. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/synthetic_data/full_deploy_dd_and_synth.sh +0 -0
  46. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/synthetic_data/generate_synth_metadata.sh +0 -0
  47. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/upload/metadata/upload_all_studies.sh +0 -0
  48. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/services/upload/metadata/upload_metadata.py +0 -0
  49. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/upload/__init__.py +0 -0
  50. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/upload/metadata_deleter.py +0 -0
  51. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/upload/metadata_submitter.py +0 -0
  52. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/upload/upload_synthdata_s3.py +0 -0
  53. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/utils/athena_utils.py +0 -0
  54. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/utils/dbt_utils.py +0 -0
  55. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/utils/release_writer.py +0 -0
  56. {gen3_dataops_toolkit-3.7.1 → gen3_dataops_toolkit-3.7.3}/src/g3dt/validate/validate.py +0 -0
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: gen3-dataops-toolkit
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- Version: 3.7.1
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+ Version: 3.7.3
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  Summary: Gen3 DataOps toolkit (g3dt): operate SSM-published Gen3 data pipeline environments
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  License: Apache-2.0
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  Author: JoshuaHarris391
@@ -1,6 +1,6 @@
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  [tool.poetry]
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  name = "gen3-dataops-toolkit"
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- version = "3.7.1"
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+ version = "3.7.3"
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  description = "Gen3 DataOps toolkit (g3dt): operate SSM-published Gen3 data pipeline environments"
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  authors = ["JoshuaHarris391 <harjo391@gmail.com>"]
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  readme = "README.md"
@@ -503,7 +503,11 @@ def delete(
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  @app.command(name="install-simulator")
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  def install_simulator() -> None:
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- """Install the gen3-metadata-simulator generator (the 'synth' extra)."""
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+ """Install or upgrade the gen3-metadata-simulator generator (the 'synth' extra)."""
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  import sys
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508
 
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- runner.run([sys.executable, "-m", "pip", "install", "gen3-metadata-simulator"])
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+ # --upgrade so re-running after a simulator release actually updates it;
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+ # without it pip leaves an existing (stale) install untouched.
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+ runner.run(
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+ [sys.executable, "-m", "pip", "install", "--upgrade", "gen3-metadata-simulator"]
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+ )
@@ -13,6 +13,19 @@ DEFAULT_REGION = "ap-southeast-2"
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  DEFAULT_PROFILE = None # ambient credentials unless --aws-profile is given
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  DEFAULT_SUBMISSION_SIZE_KB = 50
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+ # Nodes never submitted from a synthetic batch. The first four are the
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+ # structural nodes MetadataSubmitter always excludes; core_metadata_collection
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+ # is excluded here too because the simulator fills its date-time fields with
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+ # random words, which Sheepdog rejects (400) — and synthetic data has no use
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+ # for it anyway.
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+ EXCLUDE_NODES = [
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+ "program",
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+ "project",
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+ "acknowledgement",
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+ "publication",
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+ "core_metadata_collection",
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+ ]
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+
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  def submit_synthetic_metadata(
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  base_dir,
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  project_id,
@@ -57,6 +70,7 @@ def submit_synthetic_metadata(
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  table=None,
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  athena_s3_output=None,
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  max_size_kb=max_submission_size_kb,
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+ exclude_nodes=EXCLUDE_NODES,
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  aws_profile=aws_profile,
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  upload_to_database=False,
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  )