idc-index-data 20.0.0__tar.gz → 20.0.2__tar.gz

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  1. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/workflows/external-indices.yml +1 -1
  2. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/PKG-INFO +1 -1
  3. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/assets/sm_instance_index.sql +2 -0
  4. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/pyproject.toml +1 -1
  5. idc_index_data-20.0.0/scripts/python/external-indices.py → idc_index_data-20.0.2/scripts/python/generate-indices.py +10 -0
  6. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.git_archival.txt +0 -0
  7. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.gitattributes +0 -0
  8. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/CONTRIBUTING.md +0 -0
  9. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/dependabot.yml +0 -0
  10. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/matchers/pylint.json +0 -0
  11. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/workflows/cd.yml +0 -0
  12. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/workflows/ci.yml +0 -0
  13. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/workflows/keep-alive.yml +0 -0
  14. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.gitignore +0 -0
  15. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.pre-commit-config.yaml +0 -0
  16. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/.readthedocs.yaml +0 -0
  17. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/CMakeLists.txt +0 -0
  18. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/LICENSE +0 -0
  19. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/README.md +0 -0
  20. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/assets/README.md +0 -0
  21. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/assets/clinical_index.sql +0 -0
  22. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/assets/sm_index.sql +0 -0
  23. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/docs/conf.py +0 -0
  24. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/docs/index.md +0 -0
  25. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/noxfile.py +0 -0
  26. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/scripts/python/idc_index_data_manager.py +0 -0
  27. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/scripts/python/update_idc_index_version.py +0 -0
  28. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/scripts/sql/idc_index.sql +0 -0
  29. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/scripts/sql/prior_versions_index.sql +0 -0
  30. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/src/idc_index_data/__init__.py +0 -0
  31. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/src/idc_index_data/_version.pyi +0 -0
  32. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/src/idc_index_data/py.typed +0 -0
  33. {idc_index_data-20.0.0 → idc_index_data-20.0.2}/tests/test_package.py +0 -0
{idc_index_data-20.0.0 → idc_index_data-20.0.2}/.github/workflows/external-indices.yml RENAMED
@@ -46,7 +46,7 @@ jobs:
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  - name: Execute SQL Query and Generate Parquet Files
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  run: |
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- python scripts/python/external-indices.py
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+ python scripts/python/generate-indices.py
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  env:
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  PROJECT_ID: ${{ env.GCP_PROJECT }}
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{idc_index_data-20.0.0 → idc_index_data-20.0.2}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: idc-index-data
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- Version: 20.0.0
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+ Version: 20.0.2
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  Summary: ImagingDataCommons index to query and download data.
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  Author-Email: Andrey Fedorov <andrey.fedorov@gmail.com>, Vamsi Thiriveedhi <vthiriveedhi@mgh.harvard.edu>, Jean-Christophe Fillion-Robin <jchris.fillionr@kitware.com>
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  License: Copyright 2024 Andrey Fedorov
{idc_index_data-20.0.0 → idc_index_data-20.0.2}/assets/sm_instance_index.sql RENAMED
@@ -102,6 +102,8 @@ SELECT
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  dicom_all.ImageType,
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  dicom_all.TransferSyntaxUID,
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  dicom_all.instance_size,
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+ dicom_all.TotalPixelMatrixColumns,
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+ dicom_all.TotalPixelMatrixRows,
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  -- attributes needed to retrieve the selected instances/files
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  dicom_all.crdc_instance_uuid
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  FROM
{idc_index_data-20.0.0 → idc_index_data-20.0.2}/pyproject.toml RENAMED
@@ -13,7 +13,7 @@ build-backend = "scikit_build_core.build"
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  [project]
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  name = "idc-index-data"
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- version = "20.0.0"
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+ version = "20.0.2"
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  authors = [
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  { name = "Andrey Fedorov", email = "andrey.fedorov@gmail.com" },
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  { name = "Vamsi Thiriveedhi", email = "vthiriveedhi@mgh.harvard.edu" },
idc_index_data-20.0.0/scripts/python/external-indices.py → idc_index_data-20.0.2/scripts/python/generate-indices.py RENAMED
@@ -11,6 +11,7 @@ def main():
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  project_id = os.getenv("PROJECT_ID")
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  manager = IDCIndexDataManager(project_id=project_id)
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  scripts_dir = Path(__file__).resolve().parent.parent
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+
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  assets_dir = scripts_dir.parent / "assets"
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  # Collecting all .sql files from sql_dir and assets_dir
@@ -21,6 +22,15 @@ def main():
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  index_df, output_basename = manager.execute_sql_query(file_path)
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  index_df.to_parquet(f"{output_basename}.parquet")
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+ core_indices_dir = scripts_dir.parent / "scripts" / "sql"
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+
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+ sql_files = [f for f in os.listdir(core_indices_dir) if f.endswith(".sql")]
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+
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+ for file_name in sql_files:
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+ file_path = core_indices_dir / file_name
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+ index_df, output_basename = manager.execute_sql_query(file_path)
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+ index_df.to_parquet(f"{output_basename}.parquet")
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+
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  if __name__ == "__main__":
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  main()
{idc_index_data-20.0.0 → idc_index_data-20.0.2}/LICENSE RENAMED
File without changes