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james-cockaynejames-cockayne
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Added extra concepts and updated measurements merging logic.
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‎Database/Migrations/sql/RepeatableMigrations/R__insert_update_measurements.sql‎

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@@ -71,6 +71,7 @@ begin
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where m.person_id = p.person_id
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and m.measurement_date = r.measurement_date
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and m.measurement_concept_id = r.measurement_concept_id
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and (r.measurement_source_concept_id is null or m.measurement_source_concept_id = r.measurement_source_concept_id)
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);
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declare @columns table (Name varchar(max));

‎Database/Setup/V3 Oxford Concepts.sql‎

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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500007,-- concept_id
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'PrimaryPathwayMetastasis',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'PrimaryPathwayMetastasis',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500008,-- concept_id
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'NonPrimaryPathwayRecurrenceMetastasis',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'NonPrimaryPathwayRecurrenceMetastasis',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500009,-- concept_id
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'NonPrimaryPathwayProgressionMetastasis',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'NonPrimaryPathwayProgressionMetastasis',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500010,-- concept_id
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'MCategoryIntegratedStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'MCategoryIntegratedStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500011,-- concept_id
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'NCategoryIntegratedStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'NCategoryIntegratedStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500012,-- concept_id
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'TCategoryIntegratedStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'TCategoryIntegratedStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500013,-- concept_id
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'TNMCategoryIntegratedStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'TNMCategoryIntegratedStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500014,-- concept_id
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'MCategoryFinalPreTreatmentStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'MCategoryFinalPreTreatmentStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500015,-- concept_id
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'NCategoryFinalPreTreatmentStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'NCategoryFinalPreTreatmentStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500016,-- concept_id
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'TCategoryFinalPreTreatmentStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'TCategoryFinalPreTreatmentStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500017,-- concept_id
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'TNMCategoryFinalPreTreatmentStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'TNMCategoryFinalPreTreatmentStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500018,-- concept_id
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'IntegratedStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'IntegratedStage',
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'1970-01-01',
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'2099-12-31',
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null
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);
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insert into cdm.concept
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(
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concept_id,
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concept_name,
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domain_id,
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vocabulary_id,
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concept_class_id,
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standard_concept,
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concept_code,
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valid_start_date,
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valid_end_date,
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invalid_reason
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)
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values
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(
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2000500019,-- concept_id
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'FinalPreTreatmentStage',
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'Measurement',
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'OXFORD',
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'Measurement',
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null,
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'FinalPreTreatmentStage',
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'1970-01-01',
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'2099-12-31',
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null
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);

‎OmopTransformer/COSD/Measurements/CosdV8MeasurementMcategoryFinalPreTreatmentStage/CosdV8MeasurementGradeOfDifferentiation.cs‎

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@@ -23,4 +23,7 @@ internal class CosdV8MeasurementMcategoryFinalPreTreatmentStage : OmopMeasuremen
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[Transform(typeof(MCategoryLookup), nameof(Source.McategoryFinalPreTreatment))]
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public override int? measurement_concept_id { get; set; }
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[ConstantValue(2000500014, "MCategoryFinalPreTreatmentStage")]
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public override int? measurement_source_concept_id { get; set; }
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}

‎OmopTransformer/COSD/Measurements/CosdV8MeasurementMcategoryIntegratedStage/CosdV8MeasurementMcategoryIntegratedStage.cs‎

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@@ -23,4 +23,7 @@ internal class CosdV8MeasurementMcategoryIntegratedStage : OmopMeasurement<CosdV
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[Transform(typeof(MCategoryLookup), nameof(Source.MCategoryIntegratedStage))]
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public override int? measurement_concept_id { get; set; }
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[ConstantValue(2000500010, "MCategoryIntegratedStage")]
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public override int? measurement_source_concept_id { get; set; }
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}

‎OmopTransformer/COSD/Measurements/CosdV8MeasurementNcategoryFinalPreTreatmentStage/CosdV8MeasurementNcategoryFinalPreTreatmentStage.cs‎

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@@ -23,4 +23,7 @@ internal class CosdV8MeasurementNcategoryFinalPreTreatmentStage : OmopMeasuremen
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[Transform(typeof(NCategoryLookup), nameof(Source.NcategoryFinalPreTreatment))]
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public override int? measurement_concept_id { get; set; }
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[ConstantValue(2000500015, "NCategoryFinalPreTreatmentStage")]
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public override int? measurement_source_concept_id { get; set; }
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}

‎OmopTransformer/COSD/Measurements/CosdV8MeasurementNcategoryIntegratedStage/CosdV8MeasurementNcategoryIntegratedStage.cs‎

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@@ -23,4 +23,7 @@ internal class CosdV8MeasurementNcategoryIntegratedStage : OmopMeasurement<CosdV
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[Transform(typeof(NCategoryLookup), nameof(Source.NCategoryIntegratedStage))]
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public override int? measurement_concept_id { get; set; }
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[ConstantValue(2000500011, "NCategoryIntegratedStage")]
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public override int? measurement_source_concept_id { get; set; }
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}

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