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update 5.3 and 5.2 check description files
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,27 +1,27 @@ | ||
| checkLevel,checkName,checkDescription,kahnContext,kahnCategory,kahnSubcategory,sqlFile,evaluationFilter | ||
| TABLE,cdmTable,A yes or no value indicating if @cdmTableName table is present as expected based on the specification. ,Verification,Conformance,Relational,table_cdm_table.sql,cdmTableName!='' | ||
| TABLE,measurePersonCompleteness,The number and percent of persons in the CDM that do not have at least one record in the @cdmTableName table,Validation,Completeness,,table_person_completeness.sql,measurePersonCompleteness=='Yes' | ||
| TABLE,measureConditionEraCompleteness,"The number and Percent of persons that does not have condition_era built successfully | ||
| for all persons in condition_occurrence",Validation,Completeness,,table_condition_era_completeness.sql,measureConditionEraCompleteness=='Yes' | ||
| FIELD,cdmField,A yes or no value indicating if @cdmFieldName is present in the @cdmTableName table as expected based on the specification. ,Verification,Conformance,Relational,field_cdm_field.sql,cdmFieldName!='' | ||
| FIELD,isRequired,The number and percent of records with a NULL value in the @cdmFieldName of the @cdmTableName that is considered not nullable.,Validation,Conformance,Relational,field_is_not_nullable.sql,isRequired=='Yes' | ||
| FIELD,cdmDatatype,A yes or no value indicating if the @cdmFieldName in the @cdmTableName is the expected data type based on the specification.,Verification,Conformance,Value,field_cdm_datatype.sql,cdmDatatype=='integer' | ||
| FIELD,isPrimaryKey,The number and percent of records that have a duplicate value in the @cdmFieldName field of the @cdmTableName.,Verification,Conformance,Relational,field_is_primary_key.sql,isPrimaryKey=='Yes' | ||
| FIELD,isForeignKey,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that does not exist in the @fkTableName table.,Verification,Conformance,Relational,is_foreign_key.sql,isForeignKey=='Yes' | ||
| FIELD,fkDomain,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that do not conform to the @fkDomain domain.,Verification,Conformance,Value,field_fk_domain.sql,isForeignKey=='Yes' & fkDomain!= '' | ||
| FIELD,fkClass,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that do not conform to the @fkClass class.,Verification,Conformance,Computational,field_fk_class.sql,isForeignKey=='Yes' & fkClass!='' | ||
| FIELD,isStandardValidConcept,"The number and percent of records that do not have a standard, valid concept in the @cdmFieldName field in the @cdmTableName table. ",Verification,Conformance,Value,field_is_standard_valid_concept.sql,isStandardValidConcept=='Yes' | ||
| FIELD,measureValueCompleteness,The number and percent of records with a NULL value in the @cdmFieldName of the @cdmTableName.,Verification,Completeness,,field_measure_value_completeness.sql,measureValueCompleteness=='Yes' | ||
| FIELD,standardConceptRecordCompleteness,The number and percent of records with a value of 0 in the standard concept field @cdmFieldName in the @cdmTableName table.,Verification,Completeness,,field_concept_record_completeness.sql,standardConceptRecordCompleteness=='Yes' | ||
| FIELD,sourceConceptRecordCompleteness,The number and percent of records with a value of 0 in the source concept field @cdmFieldName in the @cdmTableName table.,Verification,Completeness,,field_concept_record_completeness.sql,sourceConceptRecordCompleteness=='Yes' | ||
| FIELD,sourceValueCompleteness,The number and percent of distinct source values in the @cdmFieldName field of the @cdmTableName table mapped to 0.,Verification,Completeness,,field_source_value_completeness.sql,sourceValueCompleteness=='Yes' | ||
| FIELD,plausibleValueLow,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName table less than @plausibleValueLow.,Verification,Plausibility,Atemporal,field_plausible_value_low.sql,plausibleValueLow!='' | ||
| FIELD,plausibleValueHigh,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName table greater than @plausibleValueHigh.,Verification,Plausibility,Atemporal,field_plausible_value_high.sql,plausibleValueHigh!='' | ||
| FIELD,plausibleTemporalAfter,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName that occurs prior to the date in the @plausibleTemporalAfterFieldName field of the @plausibleTemporalAfterTableName table.,Verification,Plausibility,Temporal,field_plausible_temporal_after.sql,plausibleTemporalAfter=='Yes' | ||
| FIELD,plausibleDuringLife,"If yes, the number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs after death.",Verification,Plausibility,Temporal,field_plausible_during_life.sql,plausibleDuringLife=='Yes' | ||
| FIELD,withinVisitDates,The number and percent of records not within one week on either side of the corresponding visit occurrence start and end date,Verification,Conformance,,field_within_visit_dates.sql,withinVisitDates=='Yes' | ||
| FIELD,plausibleAfterBirth,"The number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs prior to birth.",Verification,Plausibility,Temporal,field_plausible_after_birth.sql,plausibleAfterBirth=='Yes' | ||
| FIELD,plausibleBeforeDeath,"The number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs after death.",Verification,Plausibility,Temporal,field_plausible_before_death.sql,plausibleBeforeDeath=='Yes' | ||
| FIELD,plausibleStartBeforeEnd,"The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName that occurs after the date in the @plausibleStartBeforeEndFieldName.",Verification,Plausibility,Temporal,field_plausible_start_before_end.sql,plausibleStartBeforeEnd=='Yes' | ||
| CONCEPT,plausibleGender,"For a CONCEPT_ID @conceptId (@conceptName), the number and percent of records associated with patients with an implausible gender (correct gender = @plausibleGender).",Validation,Plausibility,Atemporal,concept_plausible_gender.sql,plausibleGender!='' | ||
| CONCEPT,plausibleUnitConceptIds,"The number and percent of records for a given CONCEPT_ID @conceptId (@conceptName) with implausible units (i.e., UNIT_CONCEPT_ID NOT IN (@plausibleUnitConceptIds)).",Verification,Plausibility,Atemporal,concept_plausible_unit_concept_ids.sql,plausibleUnitConceptIdsThreshold!='' | ||
| checkLevel,checkName,checkDescription,kahnContext,kahnCategory,kahnSubcategory,sqlFile,evaluationFilter,severity | ||
| TABLE,cdmTable,A yes or no value indicating if @cdmTableName table is present as expected based on the specification. ,Verification,Conformance,Relational,table_cdm_table.sql,cdmTableName!='',fatal | ||
| TABLE,measurePersonCompleteness,The number and percent of persons in the CDM that do not have at least one record in the @cdmTableName table,Validation,Completeness,,table_person_completeness.sql,measurePersonCompleteness=='Yes', | ||
| TABLE,measureConditionEraCompleteness,"The number and Percent of persons that does not have condition_era built successfully | ||
| for all persons in condition_occurrence",Validation,Completeness,,table_condition_era_completeness.sql,measureConditionEraCompleteness=='Yes', | ||
| FIELD,cdmField,A yes or no value indicating if @cdmFieldName is present in the @cdmTableName table as expected based on the specification. ,Verification,Conformance,Relational,field_cdm_field.sql,cdmFieldName!='',fatal | ||
| FIELD,isRequired,The number and percent of records with a NULL value in the @cdmFieldName of the @cdmTableName that is considered not nullable.,Validation,Conformance,Relational,field_is_not_nullable.sql,isRequired=='Yes',fatal | ||
| FIELD,cdmDatatype,A yes or no value indicating if the @cdmFieldName in the @cdmTableName is the expected data type based on the specification.,Verification,Conformance,Value,field_cdm_datatype.sql,cdmDatatype=='integer',fatal | ||
| FIELD,isPrimaryKey,The number and percent of records that have a duplicate value in the @cdmFieldName field of the @cdmTableName.,Verification,Conformance,Relational,field_is_primary_key.sql,isPrimaryKey=='Yes',fatal | ||
| FIELD,isForeignKey,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that does not exist in the @fkTableName table.,Verification,Conformance,Relational,is_foreign_key.sql,isForeignKey=='Yes',fatal | ||
| FIELD,fkDomain,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that do not conform to the @fkDomain domain.,Verification,Conformance,Value,field_fk_domain.sql,isForeignKey=='Yes' & fkDomain!= '',convention | ||
| FIELD,fkClass,The number and percent of records that have a value in the @cdmFieldName field in the @cdmTableName table that do not conform to the @fkClass class.,Verification,Conformance,Computational,field_fk_class.sql,isForeignKey=='Yes' & fkClass!='',convention | ||
| FIELD,isStandardValidConcept,"The number and percent of records that do not have a standard, valid concept in the @cdmFieldName field in the @cdmTableName table. ",Verification,Conformance,Value,field_is_standard_valid_concept.sql,isStandardValidConcept=='Yes', | ||
| FIELD,measureValueCompleteness,The number and percent of records with a NULL value in the @cdmFieldName of the @cdmTableName.,Verification,Completeness,,field_measure_value_completeness.sql,measureValueCompleteness=='Yes', | ||
| FIELD,standardConceptRecordCompleteness,The number and percent of records with a value of 0 in the standard concept field @cdmFieldName in the @cdmTableName table.,Verification,Completeness,,field_concept_record_completeness.sql,standardConceptRecordCompleteness=='Yes', | ||
| FIELD,sourceConceptRecordCompleteness,The number and percent of records with a value of 0 in the source concept field @cdmFieldName in the @cdmTableName table.,Verification,Completeness,,field_concept_record_completeness.sql,sourceConceptRecordCompleteness=='Yes', | ||
| FIELD,sourceValueCompleteness,The number and percent of distinct source values in the @cdmFieldName field of the @cdmTableName table mapped to 0.,Verification,Completeness,,field_source_value_completeness.sql,sourceValueCompleteness=='Yes', | ||
| FIELD,plausibleValueLow,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName table less than @plausibleValueLow.,Verification,Plausibility,Atemporal,field_plausible_value_low.sql,plausibleValueLow!='', | ||
| FIELD,plausibleValueHigh,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName table greater than @plausibleValueHigh.,Verification,Plausibility,Atemporal,field_plausible_value_high.sql,plausibleValueHigh!='', | ||
| FIELD,plausibleTemporalAfter,The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName that occurs prior to the date in the @plausibleTemporalAfterFieldName field of the @plausibleTemporalAfterTableName table.,Verification,Plausibility,Temporal,field_plausible_temporal_after.sql,plausibleTemporalAfter=='Yes', | ||
| FIELD,plausibleDuringLife,"If yes, the number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs after death.",Verification,Plausibility,Temporal,field_plausible_during_life.sql,plausibleDuringLife=='Yes', | ||
| FIELD,withinVisitDates,The number and percent of records not within one week on either side of the corresponding visit occurrence start and end date,Verification,Conformance,,field_within_visit_dates.sql,withinVisitDates=='Yes', | ||
| FIELD,plausibleAfterBirth,"The number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs prior to birth.",Verification,Plausibility,Temporal,field_plausible_after_birth.sql,plausibleAfterBirth=='Yes', | ||
| FIELD,plausibleBeforeDeath,"The number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs after death.",Verification,Plausibility,Temporal,field_plausible_before_death.sql,plausibleBeforeDeath=='Yes', | ||
| FIELD,plausibleStartBeforeEnd,"The number and percent of records with a value in the @cdmFieldName field of the @cdmTableName that occurs after the date in the @plausibleStartBeforeEndFieldName.",Verification,Plausibility,Temporal,field_plausible_start_before_end.sql,plausibleStartBeforeEnd=='Yes', | ||
| CONCEPT,plausibleGender,"For a CONCEPT_ID @conceptId (@conceptName), the number and percent of records associated with patients with an implausible gender (correct gender = @plausibleGender).",Validation,Plausibility,Atemporal,concept_plausible_gender.sql,plausibleGender!='', | ||
| CONCEPT,plausibleUnitConceptIds,"The number and percent of records for a given CONCEPT_ID @conceptId (@conceptName) with implausible units (i.e., UNIT_CONCEPT_ID NOT IN (@plausibleUnitConceptIds)).",Verification,Plausibility,Atemporal,concept_plausible_unit_concept_ids.sql,plausibleUnitConceptIdsThreshold!='', |
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