idc-index-data 19.0.1__tar.gz → 19.0.3__tar.gz

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Files changed (33) hide show
  1. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/PKG-INFO +1 -1
  2. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/assets/clinical_index.sql +1 -0
  3. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/assets/sm_index.sql +7 -0
  4. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/pyproject.toml +1 -1
  5. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.git_archival.txt +0 -0
  6. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.gitattributes +0 -0
  7. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/CONTRIBUTING.md +0 -0
  8. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/dependabot.yml +0 -0
  9. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/matchers/pylint.json +0 -0
  10. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/workflows/cd.yml +0 -0
  11. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/workflows/ci.yml +0 -0
  12. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/workflows/external-indices.yml +0 -0
  13. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.github/workflows/keep-alive.yml +0 -0
  14. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.gitignore +0 -0
  15. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.pre-commit-config.yaml +0 -0
  16. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/.readthedocs.yaml +0 -0
  17. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/CMakeLists.txt +0 -0
  18. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/LICENSE +0 -0
  19. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/README.md +0 -0
  20. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/assets/README.md +0 -0
  21. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/assets/sm_instance_index.sql +0 -0
  22. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/docs/conf.py +0 -0
  23. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/docs/index.md +0 -0
  24. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/noxfile.py +0 -0
  25. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/scripts/python/external-indices.py +0 -0
  26. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/scripts/python/idc_index_data_manager.py +0 -0
  27. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/scripts/python/update_idc_index_version.py +0 -0
  28. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/scripts/sql/idc_index.sql +0 -0
  29. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/scripts/sql/prior_versions_index.sql +0 -0
  30. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/src/idc_index_data/__init__.py +0 -0
  31. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/src/idc_index_data/_version.pyi +0 -0
  32. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/src/idc_index_data/py.typed +0 -0
  33. {idc_index_data-19.0.1 → idc_index_data-19.0.3}/tests/test_package.py +0 -0
{idc_index_data-19.0.1 → idc_index_data-19.0.3}/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: 19.0.1
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+ Version: 19.0.3
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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-19.0.1 → idc_index_data-19.0.3}/assets/clinical_index.sql RENAMED
@@ -4,6 +4,7 @@ SELECT
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  SPLIT(table_name,'.')[SAFE_OFFSET(2)] AS short_table_name,
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  `column`,
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  column_label,
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+ `values`
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  FROM
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  `bigquery-public-data.idc_v19_clinical.column_metadata`
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  ORDER BY
{idc_index_data-19.0.1 → idc_index_data-19.0.3}/assets/sm_index.sql RENAMED
@@ -26,6 +26,10 @@ WITH
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  ARRAY_AGG(DISTINCT(CONCAT(SpecimenDescriptionSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureModifierSequence[SAFE_OFFSET(0)].CodingSchemeDesignator,":", SpecimenDescriptionSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureModifierSequence[SAFE_OFFSET(0)].CodeValue, ":", SpecimenDescriptionSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureSequence[SAFE_OFFSET(0)].PrimaryAnatomicStructureModifierSequence[SAFE_OFFSET(0)].CodeMeaning)) IGNORE NULLS)[SAFE_OFFSET(0)] AS primaryAnatomicStructureModifier_code_str,
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  ARRAY_AGG(DISTINCT(CONCAT(OpticalPathSequence[SAFE_OFFSET(0)].IlluminationTypeCodeSequence[SAFE_OFFSET(0)].CodingSchemeDesignator,":", OpticalPathSequence[SAFE_OFFSET(0)].IlluminationTypeCodeSequence[SAFE_OFFSET(0)].CodeValue, ":", OpticalPathSequence[SAFE_OFFSET(0)].IlluminationTypeCodeSequence[SAFE_OFFSET(0)].CodeMeaning)) IGNORE NULLS)[SAFE_OFFSET(0)] AS illuminationType_code_str,
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+
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+ ARRAY_AGG(DISTINCT(CONCAT(AdmittingDiagnosesCodeSequence[SAFE_OFFSET(0)].CodingSchemeDesignator,":", AdmittingDiagnosesCodeSequence[SAFE_OFFSET(0)].CodeValue, ":", AdmittingDiagnosesCodeSequence[SAFE_OFFSET(0)].CodeMeaning)) IGNORE NULLS)[SAFE_OFFSET(0)] AS admittingDiagnosis_code_str
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+
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+
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  FROM
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  `bigquery-public-data.idc_v19.dicom_all` AS dicom_all
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  GROUP BY
@@ -123,6 +127,9 @@ SELECT
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  CONCAT(SPLIT(illuminationType_code_str,":")[SAFE_OFFSET(0)],":",SPLIT(illuminationType_code_str,":")[SAFE_OFFSET(1)]) as illuminationType_code_designator_value_str,
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  SPLIT(illuminationType_code_str,":")[SAFE_OFFSET(2)] as illuminationType_CodeMeaning,
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+
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+ CONCAT(SPLIT(admittingDiagnosis_code_str,":")[SAFE_OFFSET(0)],":",SPLIT(admittingDiagnosis_code_str,":")[SAFE_OFFSET(1)]) as admittingDiagnosis_code_designator_value_str,
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+ SPLIT(admittingDiagnosis_code_str,":")[SAFE_OFFSET(2)] as admittingDiagnosis_CodeMeaning,
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  FROM
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  temp_table
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  LEFT JOIN slide_embedding on temp_table.SeriesInstanceUID = slide_embedding.SeriesInstanceUID
{idc_index_data-19.0.1 → idc_index_data-19.0.3}/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 = "19.0.1"
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+ version = "19.0.3"
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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-19.0.1 → idc_index_data-19.0.3}/LICENSE RENAMED
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