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khayamAminkhayamAmin
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Merge pull request #257 from answerdigital/feature/sact-provider-caresite-measurement
Added SACT - Provider, Care Site and Measurement
2 parents d939e99 + 818c73a commit a103a54

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‎OmopTransformer/OmopTransformer.csproj‎

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<None Update="SACT\ConditionOccurrence\SactConditionOccurrence.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SACT\Measurements\SactMeasurementHeight\SactMeasurementHeight.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SACT\Measurements\SactMeasurementWeightAtStartOfCycle\SactMeasurementWeightAtStartOfCycle.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SACT\Measurements\SactMeasurementWeightAtStartOfRegimen\SactMeasurementWeightAtStartOfRegimen.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SACT\Provider\SactProvider.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SACT\CareSite\SactCareSite.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>
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<None Update="SUS\AE\DeviceExposure\InvestigationDevice\SusAEInvestigationDevice.xml">
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<CopyToOutputDirectory>Always</CopyToOutputDirectory>
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</None>

‎OmopTransformer/OxfordGP/VisitDetail/OxfordGPVisitDetail.xml‎

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<Explanation columnName="EventDate">
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<Description>Event date</Description>
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</Explanation>
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<Explanation columnName="GPEventsPrimaryKey">
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<Description>GP Events Unique ID</Description>
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</Explanation>
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</Explanations>
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</Query>

‎OmopTransformer/OxfordGP/VisitOccurrence/OxfordGPVisitOccurrence.cs‎

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[ConstantValue(32818, "`EHR administration record`")]
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public override int? visit_type_concept_id { get; set; }
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[CopyValue(nameof(Source.GPEventsPrimaryKey))]
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public override string? RecordConnectionIdentifier { get; set; }
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}

‎OmopTransformer/OxfordGP/VisitOccurrence/OxfordGPVisitOccurrence.xml‎

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<Explanation columnName="EventDate">
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<Description>Event date</Description>
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</Explanation>
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<Explanation columnName="GPEventsPrimaryKey">
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<Description>GP Events Unique ID</Description>
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</Explanation>
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</Explanations>
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</Query>

‎OmopTransformer/OxfordPrescribing/DrugExposureWithSnomed/OxfordPrescribingDrugExposureWithSnomed.xml‎

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<Explanation columnName="strengthdose">
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<Description>The unit of the drug dose</Description>
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</Explanation>
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<Explanation columnName="EVENT_ID">
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<Description>The unique ID of the Event</Description>
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</Explanation>
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</Explanations>
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</Query>

‎OmopTransformer/SACT/CareSite/SactCareSite.cs‎

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using OmopTransformer.Annotations;
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using OmopTransformer.Omop.CareSite;
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namespace OmopTransformer.SACT.CareSite;
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internal class SactCareSite : OmopCareSite<SactCareSiteRecord>
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{
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[CopyValue(nameof(Source.Organisation_Identifier_Code_Of_Provider))]
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public override string? care_site_name { get; set; }
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}

‎OmopTransformer/SACT/CareSite/SactCareSite.xml‎

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<Query>
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<Sql>
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select distinct
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Organisation_Identifier_Code_Of_Provider
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from omop_staging.sact_staging
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</Sql>
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<Explanations>
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<Explanation columnName="Organisation_Identifier_Code_Of_Provider">
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<Description>ORGANISATION SITE CODE of the ORGANISATION where the PATIENT was treated</Description>
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<Origin>ORGANISATION IDENTIFIER (CODE OF PROVIDER)</Origin>
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</Explanation>
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</Explanations>
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</Query>

‎OmopTransformer/SACT/CareSite/SactCareSiteRecord.cs‎

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using OmopTransformer.Annotations;
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namespace OmopTransformer.SACT.CareSite;
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[DataOrigin("SACT")]
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[Description("SACT Inpatient Care Site")]
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[SourceQuery("SactCareSite.xml")]
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internal class SactCareSiteRecord
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{
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public string? Organisation_Identifier_Code_Of_Provider { get; set; }
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}

‎OmopTransformer/SACT/Measurements/SactMeasurementHeight/SactMeasurementHeight.cs‎

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using OmopTransformer.Annotations;
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using OmopTransformer.Omop.Measurement;
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using OmopTransformer.Transformation;
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namespace OmopTransformer.SACT.Measurements.SactMeasurementHeight;
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internal class SactMeasurementHeight : OmopMeasurement<SactMeasurementHeightRecord>
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{
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[CopyValue(nameof(Source.NHS_Number))]
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public override string? nhs_number { get; set; }
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[Transform(typeof(DateConverter), nameof(Source.Start_Date_Of_Regimen))]
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public override DateTime? measurement_date { get; set; }
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[Transform(typeof(DateConverter), nameof(Source.Start_Date_Of_Regimen))]
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public override DateTime? measurement_datetime { get; set; }
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[ConstantValue(32828, "EHR episode record")]
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public override int? measurement_type_concept_id { get; set; }
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[Transform(typeof(DoubleParser), nameof(Source.Height_At_Start_Of_Regimen))]
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public override double? value_as_number { get; set; }
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[CopyValue(nameof(Source.Height_At_Start_Of_Regimen))]
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public override string? value_source_value { get; set; }
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[ConstantValue(8582, "cm")]
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public override int? unit_concept_id { get; set; }
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[ConstantValue(607590, "Body Height")]
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public override int[]? measurement_concept_id { get; set; }
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public override bool IsValid => base.IsValid && value_as_number != null;
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}

‎OmopTransformer/SACT/Measurements/SactMeasurementHeight/SactMeasurementHeight.xml‎

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<Query>
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<Sql>
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select distinct
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NHS_Number,
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Height_At_Start_Of_Regimen,
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Start_Date_Of_Regimen
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from omop_staging.sact_staging
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</Sql>
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<Explanations>
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<Explanation columnName="NHS_Number">
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<Description>Patient NHS Number</Description>
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<Origin>NHS NUMBER</Origin>
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</Explanation>
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<Explanation columnName="Height_At_Start_Of_Regimen">
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<Description>Height when the treatment started</Description>
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<Origin>HEIGHT AT START OF TREATMENT</Origin>
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</Explanation>
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<Explanation columnName="Start_Date_Of_Regimen">
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<Description>Date the Regiment started</Description>
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<Origin>START DATE OF REGIMEN</Origin>
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</Explanation>
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</Explanations>
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</Query>

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