From a9968079c359c8744ad18de0e623a2d4abc35f5f Mon Sep 17 00:00:00 2001 From: Omar Khan Date: Tue, 23 Jul 2024 15:15:30 +0100 Subject: [PATCH 1/5] Updates to CodeSystems for Task Task.businessStatus and Task.statusReason --- .../CodeSystem-Genomics-business-status.json | 80 ++++++++++++++----- ...CodeSystem-Genomics-task-statusReason.json | 68 ++++++---------- ...SRareDiseaseTestOrderAccepted-Example.json | 6 +- ...onWGSRareDiseaseTestOrderHold-Example.json | 13 +-- ...SRareDiseaseTestOrderAccepted-Example.json | 6 +- ...RareDiseaseTestOrderForwarded-Example.json | 4 +- ...ask-DPYDSequencingTask-Example-update.json | 6 +- ...KCore-Task-DPYDSequencingTask-Example.json | 6 +- .../ValueSet-Genomics-business-status.json | 2 +- .../ValueSet-Genomics-task-statusReason.json | 4 +- 10 files changed, 103 insertions(+), 92 deletions(-) diff --git a/CodeSystem/CodeSystem-Genomics-business-status.json b/CodeSystem/CodeSystem-Genomics-business-status.json index e0c9e91..728a7ee 100644 --- a/CodeSystem/CodeSystem-Genomics-business-status.json +++ b/CodeSystem/CodeSystem-Genomics-business-status.json @@ -8,11 +8,11 @@ "value": "business-status-genomics" } ], - "version": "0.2.0", + "version": "0.3.0", "name": "BusinessStatusGenomics", "title": "Business Status Genomics", "status": "draft", - "date": "2022-11-25", + "date": "2024-07-23", "publisher": "NHS Digital", "contact": [ { @@ -32,32 +32,72 @@ "content": "complete", "concept": [ { - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "DeterminingTestRecoverability", + "display": "Determining Test Recoverability" }, { - "code": "AwaitingRoDAndSpecimen", - "display": "Awaiting Record of Discussion and Specimen" + "code": "TestRecoverable", + "display": "Test Recoverable" }, { - "code": "SpecimenReceived", - "display": "Specimen Received" + "code": "NotifyingRequesterOfFailure", + "display": "Notifying Requester Of Failure" }, { - "code": "RemoteProcessingRequired", - "display": "Remote Processing Required" + "code": "SampleRequested", + "display": "Sample Requested (from external lab)" + }, + { + "code": "SampleAvailabilityConfirmed", + "display": "Sample Availability Confirmed" + }, + { + "code": "SampleBookedIntoLab", + "display": "Sample Booked Into Lab" + }, + { + "code": "VariantsPrioritiesListRequired", + "display": "Variants Priorities List Required" + }, + { + "code": "VariantsPrioritiesListRetrieved", + "display": "Variants Priorities List Retrieved" + }, + { + "code": "PreviousGenomicSequenceDataRequired", + "display": "Previous Genomic Sequence Data Required" }, { - "code": "AlignSequencing", - "display": "Align Sequencing" + "code": "PreviousGenomicSequenceDataRetrieved", + "display": "Previous Genomic Sequence Data Retrieved" }, { - "code": "RemoteGeneticDataProcessingRequired", - "display": "Remote Genetic Data Processing Required" + "code": "RemoteSamplePrepRequired", + "display": "Remote Sample Prep Required" + }, + { + "code": "SampleSent", + "display": "Sample Sent" + }, + { + "code": "SampleReceived", + "display": "Sample Received" + }, + { + "code": "SampleStored", + "display": "Sample Stored" + }, + { + "code": "FurtherSamplePrepRequired", + "display": "Further Sample Prep Required" + }, + { + "code": "RemoteProcessingRequired", + "display": "Remote Processing Required" }, { - "code": "VariantsIdentified", - "display": "Variants Identified" + "code": "RemoteGenomicDataProcessingRequired", + "display": "Remote Genomic Data Processing Required" }, { "code": "RemoteInterpretationRequired", @@ -72,12 +112,12 @@ "display": "Further Clinical Details Provided" }, { - "code": "ReflexTestRequired", - "display": "Reflex Test Required" + "code": "ReflexConfirmatoryTestRequired", + "display": "Reflex/Confirmatory Test Required" }, { - "code": "ReflexTestComplete", - "display": "Reflex Test Complete" + "code": "ReflexConfirmatoryTestComplete", + "display": "Reflex/Confirmatory Test Complete" } ] } \ No newline at end of file diff --git a/CodeSystem/CodeSystem-Genomics-task-statusReason.json b/CodeSystem/CodeSystem-Genomics-task-statusReason.json index 718d198..a6f6551 100644 --- a/CodeSystem/CodeSystem-Genomics-task-statusReason.json +++ b/CodeSystem/CodeSystem-Genomics-task-statusReason.json @@ -8,11 +8,11 @@ "value": "task-statusReason-genomics" } ], - "version": "0.1.0", + "version": "0.2.0", "name": "TaskStatusReasonGenomics", "title": "Task StatusReason Genomics", "status": "draft", - "date": "2023-12-06", + "date": "2024-07-23", "publisher": "NHS England", "contact": [ { @@ -31,73 +31,53 @@ "caseSensitive": true, "content": "complete", "concept": [ - { - "code": "FurtherClinicalDetailsRequired", - "display": "Further Clinical Details Required" - }, { - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "FurtherInformationNeeded", + "display": "Further Information Needed" }, { - "code": "AwaitingRoDAndSpecimen", - "display": "Awaiting Record of Discussion and Specimen" + "code": "AwaitingSample", + "display": "Awaiting Sample" + }, + { + "code": "AwaitingRoDAndOrSample", + "display": "Awaiting Record of Discussion and/or Sample" }, { "code": "InvalidRequest", "display": "Invalid Request" }, { - "code": "PipelineActivityFailure", - "display": "Pipeline Activity Failure" + "code": "PipelineError", + "display": "Pipeline Error" }, { - "code": "TaskTimeExceeded", - "display": "Task Time Exceeded" + "code": "TimeForTaskExceeded", + "display": "Time For Task Exceeded" }, { "code": "UnableToInterpret", "display": "Unable To Interpret" }, { - "code": "SpecimenReceived", - "display": "SpecimenReceived" - }, - { - "code": "SpecimenQualityNotOK", - "display": "Specimen Quality Not OK" - }, - { - "code": "TestNoLongerRequired", - "display": "Test No Longer Required" - }, - { - "code": "MultipleTestRequestedOnTheSamePatient", - "display": "Multiple Test Requested On The Same Patient(only one test required)" - }, - { - "code": "DecisionNotToProgressWithTestRequest", - "display": "Decision Not To Progress With Test Request" - }, - { - "code": "TestCouldNotBeDeliveredDueToProcessFailures", - "display": "Test Could Not Be Delivered Due To Process Failures" + "code": "SampleSubOptimal", + "display": "Sample Sub-Optimal" }, { - "code": "WrongPatient(Mark-in-Error)", - "display": "Wrong Patient (Mark-in-Error)" + "code": "TaskNoLongerRequired", + "display": "Task No Longer Required" }, { - "code": "SampleAlignedToWrongPatient(Mark-in-Error)", - "display": "Sample Aligned To Wrong Patient (Mark-in-Error)" + "code": "NoSampleProvided", + "display": "No Sample Provided" }, { - "code": "PatienceChoiceIncorrectlyRecorded(WGS Only)-Mark-in-Error", - "display": "Patience Choice Incorrectly Recorded (WGS Only)-Mark-in-Error" + "code": "ScheduledDelay", + "display": "Scheduled Delay" }, { - "code": "CorrectionOfClinicalData(Mark-in-Error)", - "display": "Correction Of Clinical Data (Mark-in-Error)" + "code": "AwaitingOrderDetail", + "display": "Awaiting Order Detail" } ] } \ No newline at end of file diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json index 5bf65bc..7c0a776 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-NonWGSRareDiseaseTestOrderAccepted-Example", "status": "accepted", - "businessStatus": { + "statusReason": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "AwaitingSample", + "display": "Awaiting Sample" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json index 1e4399d..1237b99 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json @@ -6,17 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "TaskTimeExceeded", - "display": "Task Time Exceeded" - } - ] - }, - "businessStatus": { - "coding": [ - { - "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "NoSampleProvided", + "display": "NoSampleProvided" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json index acc2d7d..d87d993 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-WGSRareDiseaseTestOrderAccepted-Example", "status": "on-hold", - "businessStatus": { + "statusReason": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "AwaitingRoDAndSpecimen", - "display": "Awaiting Record of Discussion and Specimen" + "code": "AwaitingRoDAndOrSample", + "display": "Awaiting Record of Discussion and/or Sample" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json b/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json index 2670fb5..7f26303 100644 --- a/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SpecimenReceived", - "display": "Specimen Received" + "code": "SampleReceived", + "display": "Sample Received" } ] }, diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json index 24f4563..3eeb024 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json @@ -16,12 +16,12 @@ } ], "status": "accepted", - "businessStatus": { + "statusReason": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "AwaitingSample", + "display": "Awaiting Sample" } ] }, diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example.json b/Task/UKCore-Task-DPYDSequencingTask-Example.json index 46926cb..0c9e187 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example.json @@ -19,12 +19,12 @@ } ], "status": "requested", - "businessStatus": { + "statusReason": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "AwaitingSpecimen", - "display": "Awaiting Specimen" + "code": "AwaitingSample", + "display": "Awaiting Sample" } ] }, diff --git a/ValueSet/ValueSet-Genomics-business-status.json b/ValueSet/ValueSet-Genomics-business-status.json index 1ccf83d..acc1514 100644 --- a/ValueSet/ValueSet-Genomics-business-status.json +++ b/ValueSet/ValueSet-Genomics-business-status.json @@ -11,7 +11,7 @@ "include": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "version": "0.2.0" + "version": "0.3.0" } ] } diff --git a/ValueSet/ValueSet-Genomics-task-statusReason.json b/ValueSet/ValueSet-Genomics-task-statusReason.json index 8937647..780af59 100644 --- a/ValueSet/ValueSet-Genomics-task-statusReason.json +++ b/ValueSet/ValueSet-Genomics-task-statusReason.json @@ -2,7 +2,7 @@ "resourceType": "ValueSet", "id": "genomics-task-statusReason", "url": "https://fhir.nhs.uk/ValueSet/task-statusReason-genomics", - "version": "0.1.0", + "version": "0.2.0", "name": "GenomicsTaskStatusReason", "title":"Genomics Task Status Reason", "status": "draft", @@ -11,7 +11,7 @@ "include": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "version": "0.1.0" + "version": "0.2.0" } ] } From a7bc932adda13baf125eec4b1e93b2c065f3d4db Mon Sep 17 00:00:00 2001 From: Omar Khan Date: Tue, 23 Jul 2024 15:59:13 +0100 Subject: [PATCH 2/5] Updates to statusReason usage across tasks --- ...k-NonWGSRareDiseaseTestOrder-Cancellation-Example.json | 4 ++-- Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json | 2 +- ...areDiseaseTestOrderAccepted-FetalScenario-Example.json | 8 ++++---- ...DiseaseTestOrderAccepted-SufficientSample-Example.json | 8 ++++---- ...areDiseaseTestOrderCancelled-FollowupTest-Example.json | 4 ++-- ...DiseaseTestOrderRejected-CancerSolidTumor-Example.json | 4 ++-- ...areDiseaseTestOrderRejected-FetalScenario-Example.json | 6 +++--- ...seaseTestOrderRejected-InsufficientSample-Example.json | 4 ++-- ...SRareDiseaseTestOrderAccepted-DirectToLab-Example.json | 8 ++++---- Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json | 2 +- ...seaseTestOrderAccepted-TrioTestingProband-Example.json | 8 ++++---- ...k-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json | 4 ++-- ...reDiseaseTestOrderHold-TrioTestingProband-Example.json | 4 ++-- Task/UKCore-Task-DPYDSequencingTask-Example-update.json | 2 +- Task/UKCore-Task-DPYDSequencingTask-Example.json | 2 +- 15 files changed, 35 insertions(+), 35 deletions(-) diff --git a/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json b/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json index c380199..5aa747c 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "TestNoLongerRequired", - "display": "Test No Longer Required" + "code": "TaskNoLongerRequired", + "display": "Task No Longer Required" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json index 7c0a776..9ac4a81 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json @@ -5,7 +5,7 @@ "statusReason": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", "code": "AwaitingSample", "display": "Awaiting Sample" } diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json index 5bdf6d6..2b4b188 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example", "status": "accepted", - "statusReason": { + "businessStatus": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SpecimenReceived", - "display": "Specimen Received" + "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "code": "SampleReceived", + "display": "Sample Received" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json index b58f6a9..24e2932 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example", "status": "accepted", - "statusReason": { + "businessStatus": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SpecimenReceived", - "display": "Specimen Received" + "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "code": "SampleReceived", + "display": "Sample Received" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json index fc0bf99..7160223 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "DecisionNotToProgressWithTestRequest", - "display": "Decision Not To Progress With Test Request" + "code": "TaskNoLongerRequired", + "display": "Task No Longer Required" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json index c20ec6c..457e359 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "FurtherClinicalDetailsRequired", - "display": "Further Clinical Details Required" + "code": "FurtherInformationNeeded", + "display": "Further Information Needed" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json index 342ca4a..6106274 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json @@ -5,9 +5,9 @@ "statusReason": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/task-status-reason-genomics", - "code": "FurtherClinicalDetailsRequired", - "display": "Further Clinical Details Required" + "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", + "code": "FurtherInformationNeeded", + "display": "Further Information Needed" } ] }, diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json index 755099c..cb726a9 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SpecimenQualityNotOK", - "display": "Specimen Quality Not OK" + "code": "SampleSubOptimal", + "display": "Sample Sub-Optimal" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json index 8819108..5e299e7 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example", "status": "accepted", - "statusReason": { + "businessStatus": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SpecimenReceived", - "display": "Specimen Received" + "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "code": "SampleReceived", + "display": "Sample Received" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json index d87d993..73218f7 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json @@ -5,7 +5,7 @@ "statusReason": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", "code": "AwaitingRoDAndOrSample", "display": "Awaiting Record of Discussion and/or Sample" } diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json index 6a55eec..2db67fe 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json @@ -2,12 +2,12 @@ "resourceType": "Task", "id": "Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example", "status": "accepted", - "statusReason": { + "businessStatus": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SpecimenReceived", - "display": "Specimen Received" + "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "code": "Sample Received", + "display": "Sample Received" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json index 7e80a80..dc1acd7 100644 --- a/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingRoDAndSpecimen", - "display": "Awaiting Record of Discussion and Specimen" + "code": "AwaitingRoDAndOrSample", + "display": "Awaiting Record of Discussion and/or Sample" } ] }, diff --git a/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json index c09fe94..a4d1a01 100644 --- a/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingRoDAndSpecimen", - "display": "Awaiting Record of Discussion and Specimen" + "code": "AwaitingRoDAndOrSample", + "display": "Awaiting Record of Discussion and/or Sample" } ] }, diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json index 3eeb024..d39e40a 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json @@ -16,7 +16,7 @@ } ], "status": "accepted", - "statusReason": { + "businessStatus": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example.json b/Task/UKCore-Task-DPYDSequencingTask-Example.json index 0c9e187..ed03d77 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example.json @@ -19,7 +19,7 @@ } ], "status": "requested", - "statusReason": { + "businessStatus": { "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", From 2eb53daca1c68bdce7de91162748cba6a20b5e2d Mon Sep 17 00:00:00 2001 From: Omar Khan Date: Tue, 23 Jul 2024 16:08:07 +0100 Subject: [PATCH 3/5] Fixed typos --- ...reDiseaseTestOrderAccepted-TrioTestingProband-Example.json | 2 +- Task/UKCore-Task-DPYDSequencingTask-Example-update.json | 4 ++-- Task/UKCore-Task-DPYDSequencingTask-Example.json | 4 ++-- 3 files changed, 5 insertions(+), 5 deletions(-) diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json index 2db67fe..6fb36ba 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "Sample Received", + "code": "SampleReceived", "display": "Sample Received" } ] diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json index d39e40a..92b1513 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json @@ -16,10 +16,10 @@ } ], "status": "accepted", - "businessStatus": { + "statusReason": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", "code": "AwaitingSample", "display": "Awaiting Sample" } diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example.json b/Task/UKCore-Task-DPYDSequencingTask-Example.json index ed03d77..1c184b4 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example.json @@ -19,10 +19,10 @@ } ], "status": "requested", - "businessStatus": { + "statusReason": { "coding": [ { - "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", + "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", "code": "AwaitingSample", "display": "Awaiting Sample" } From 0999d0031be0876a87c7590a417e35dbcb2bfbdc Mon Sep 17 00:00:00 2001 From: Omar Khan Date: Mon, 29 Jul 2024 10:38:45 +0100 Subject: [PATCH 4/5] Changing codes from CamelCase to snake-case --- .../CodeSystem-Genomics-business-status.json | 50 +++++++++---------- .../CodeSystem-Genomics-message-events.json | 6 +-- ...stem-Genomics-patient-choice-category.json | 6 +-- ...CodeSystem-Genomics-patient-consultee.json | 6 +-- ...ystem-Genomics-research-participation.json | 6 +-- CodeSystem/CodeSystem-Genomics-task-code.json | 20 ++++---- ...CodeSystem-Genomics-task-statusReason.json | 24 ++++----- .../CodeSystem-Genomics-test-types.json | 6 +-- ...igital-Questionnaire-Genomics-Example.json | 2 +- ...DiseaseTestOrder-Cancellation-Example.json | 4 +- ...sk-NonWGSRareDiseaseTestOrder-Example.json | 2 +- ...SRareDiseaseTestOrderAccepted-Example.json | 4 +- ...stOrderAccepted-FetalScenario-Example.json | 4 +- ...estOrderAccepted-FollowupTest-Example.json | 2 +- ...estOrderAccepted-HaemOncology-Example.json | 2 +- ...eTestOrderAccepted-Reanlaysis-Example.json | 2 +- ...rderAccepted-SufficientSample-Example.json | 4 +- ...stOrderCancelled-FollowupTest-Example.json | 4 +- ...tOrderCompleted-CascadeTestingExample.json | 2 +- ...stOrderCompleted-FollowupTest-Example.json | 2 +- ...stOrderForwarded-OutOfCountry-Example.json | 4 +- ...erForwareded-CancerSolidTumor-Example.json | 2 +- ...onWGSRareDiseaseTestOrderHold-Example.json | 6 +-- ...rderRejected-CancerSolidTumor-Example.json | 4 +- ...SRareDiseaseTestOrderRejected-Example.json | 4 +- ...stOrderRejected-FetalScenario-Example.json | 4 +- ...erRejected-InsufficientSample-Example.json | 4 +- ...epted-VariantReinterpretation-Example.json | 2 +- ...ormAccepted-UsingStoredSample-Example.json | 2 +- ...ormAccepted-StorageOfMaterial-Example.json | 2 +- .../Task-WGSRareDiseaseTestOrder-Example.json | 2 +- ...TestOrderAccepted-DirectToLab-Example.json | 4 +- ...SRareDiseaseTestOrderAccepted-Example.json | 4 +- ...erAccepted-TrioTestingProband-Example.json | 4 +- ...estOrderCompleted-DirectToLab-Example.json | 2 +- ...rCompleted-TrioTestingProband-Example.json | 2 +- ...RareDiseaseTestOrderForwarded-Example.json | 4 +- ...easeTestOrderHold-DirectToLab-Example.json | 4 +- ...tOrderHold-TrioTestingProband-Example.json | 4 +- ...estOrderRequested-DirectToLab-Example.json | 2 +- ...ask-DPYDSequencingTask-Example-update.json | 2 +- ...KCore-Task-DPYDSequencingTask-Example.json | 2 +- 42 files changed, 114 insertions(+), 114 deletions(-) diff --git a/CodeSystem/CodeSystem-Genomics-business-status.json b/CodeSystem/CodeSystem-Genomics-business-status.json index 728a7ee..ce81255 100644 --- a/CodeSystem/CodeSystem-Genomics-business-status.json +++ b/CodeSystem/CodeSystem-Genomics-business-status.json @@ -13,10 +13,10 @@ "title": "Business Status Genomics", "status": "draft", "date": "2024-07-23", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,96 +27,96 @@ } ], "description": "Business status for test order Tasks in genomics", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ { - "code": "DeterminingTestRecoverability", + "code": "determining-test-recoverability", "display": "Determining Test Recoverability" }, { - "code": "TestRecoverable", + "code": "test-recoverable", "display": "Test Recoverable" }, { - "code": "NotifyingRequesterOfFailure", + "code": "notifying-requester-of-failure", "display": "Notifying Requester Of Failure" }, { - "code": "SampleRequested", + "code": "sample-requested", "display": "Sample Requested (from external lab)" }, { - "code": "SampleAvailabilityConfirmed", + "code": "sample-availability-confirmed", "display": "Sample Availability Confirmed" }, { - "code": "SampleBookedIntoLab", + "code": "sample-booked-into-lab", "display": "Sample Booked Into Lab" }, { - "code": "VariantsPrioritiesListRequired", + "code": "variants-priorities-list-required", "display": "Variants Priorities List Required" }, { - "code": "VariantsPrioritiesListRetrieved", + "code": "variants-priorities-list-retrieved", "display": "Variants Priorities List Retrieved" }, { - "code": "PreviousGenomicSequenceDataRequired", + "code": "previous-genomic-sequence-data-required", "display": "Previous Genomic Sequence Data Required" }, { - "code": "PreviousGenomicSequenceDataRetrieved", + "code": "previous-genomic-sequence-data-retrieved", "display": "Previous Genomic Sequence Data Retrieved" }, { - "code": "RemoteSamplePrepRequired", + "code": "remote-sample-prep-required", "display": "Remote Sample Prep Required" }, { - "code": "SampleSent", + "code": "sample-sent", "display": "Sample Sent" }, { - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" }, { - "code": "SampleStored", + "code": "sample-stored", "display": "Sample Stored" }, { - "code": "FurtherSamplePrepRequired", + "code": "further-sample-prep-required", "display": "Further Sample Prep Required" }, { - "code": "RemoteProcessingRequired", + "code": "remote-processing-required", "display": "Remote Processing Required" }, { - "code": "RemoteGenomicDataProcessingRequired", + "code": "remote-genomic-data-processing-required", "display": "Remote Genomic Data Processing Required" }, { - "code": "RemoteInterpretationRequired", + "code": "remote-interpretation-required", "display": "Remote Interpretation Required" }, { - "code": "FurtherClinicalDetailsRequired", + "code": "further-clinical-details-required", "display": "Further Clinical Details Required" }, { - "code": "FurtherClinicalDetailsProvided", + "code": "further-clinical-details-provided", "display": "Further Clinical Details Provided" }, { - "code": "ReflexConfirmatoryTestRequired", + "code": "reflex-confirmatory-test-required", "display": "Reflex/Confirmatory Test Required" }, { - "code": "ReflexConfirmatoryTestComplete", + "code": "reflex-confirmatory-test-complete", "display": "Reflex/Confirmatory Test Complete" } ] diff --git a/CodeSystem/CodeSystem-Genomics-message-events.json b/CodeSystem/CodeSystem-Genomics-message-events.json index 8f0ba32..9757e76 100644 --- a/CodeSystem/CodeSystem-Genomics-message-events.json +++ b/CodeSystem/CodeSystem-Genomics-message-events.json @@ -13,10 +13,10 @@ "title": "Message Events Genomics", "status": "draft", "date": "2022-11-25", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,7 +27,7 @@ } ], "description": "Common messaging events for Genomics Test Orders and Reports.", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ diff --git a/CodeSystem/CodeSystem-Genomics-patient-choice-category.json b/CodeSystem/CodeSystem-Genomics-patient-choice-category.json index 154d063..ad6b96e 100644 --- a/CodeSystem/CodeSystem-Genomics-patient-choice-category.json +++ b/CodeSystem/CodeSystem-Genomics-patient-choice-category.json @@ -13,10 +13,10 @@ "title": "Patient Choice Category Genomics", "status": "draft", "date": "2022-12-21T11:27:52.3231281+00:00", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,7 +27,7 @@ } ], "description": "A set of codes use to identify the categories of sources of obtaining the patient consent before undergoing Genomic test.", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ diff --git a/CodeSystem/CodeSystem-Genomics-patient-consultee.json b/CodeSystem/CodeSystem-Genomics-patient-consultee.json index a75eaeb..1159fbd 100644 --- a/CodeSystem/CodeSystem-Genomics-patient-consultee.json +++ b/CodeSystem/CodeSystem-Genomics-patient-consultee.json @@ -13,10 +13,10 @@ "title": "Patient Consultee Genomics", "status": "draft", "date": "2022-12-28T16:41:15.0168724+00:00", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,7 +27,7 @@ } ], "description": "A code to identify if patient guardian is a Consultee", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ diff --git a/CodeSystem/CodeSystem-Genomics-research-participation.json b/CodeSystem/CodeSystem-Genomics-research-participation.json index 7cec037..bbff1ea 100644 --- a/CodeSystem/CodeSystem-Genomics-research-participation.json +++ b/CodeSystem/CodeSystem-Genomics-research-participation.json @@ -13,10 +13,10 @@ "title": "Patient Choice Research Participation", "status": "draft", "date": "2022-12-21T11:27:52.3231281+00:00", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,7 +27,7 @@ } ], "description": "A set of codes use to identify the sources of obtaining the patient consent in participating in the National Genomic Research.", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ diff --git a/CodeSystem/CodeSystem-Genomics-task-code.json b/CodeSystem/CodeSystem-Genomics-task-code.json index abd2ae7..b26b748 100644 --- a/CodeSystem/CodeSystem-Genomics-task-code.json +++ b/CodeSystem/CodeSystem-Genomics-task-code.json @@ -32,7 +32,7 @@ "content": "complete", "concept": [ { - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request", "designation": [ { @@ -46,7 +46,7 @@ ] }, { - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment", "designation": [ { @@ -60,7 +60,7 @@ ] }, { - "code": "SamplePreparation", + "code": "sample-preparation", "display": "Sample Preparation", "designation": [ { @@ -74,7 +74,7 @@ ] }, { - "code": "SampleProcessing", + "code": "sample-processing", "display": "Sample Processing", "designation": [ { @@ -88,7 +88,7 @@ ] }, { - "code": "GeneticGenomicDataProcessing", + "code": "genetic-genomic-data-processing", "display": "Genetic/Genomic Data Processing", "designation": [ { @@ -102,7 +102,7 @@ ] }, { - "code": "Interpretation", + "code": "interpretation", "display": "Interpretation", "designation": [ { @@ -116,7 +116,7 @@ ] }, { - "code": "ProduceInterimReport", + "code": "produce-interim-report", "display": "Produce Interim Report", "designation": [ { @@ -130,7 +130,7 @@ ] }, { - "code": "GenomicMDT", + "code": "genomic-mdt", "display": "Genomic MDT", "designation": [ { @@ -144,7 +144,7 @@ ] }, { - "code": "ProduceFinalReport", + "code": "produce-final-report", "display": "Produce Final Report", "designation": [ { @@ -158,7 +158,7 @@ ] }, { - "code": "DistributeReport", + "code": "distribute-report", "display": "Distribute Report", "designation": [ { diff --git a/CodeSystem/CodeSystem-Genomics-task-statusReason.json b/CodeSystem/CodeSystem-Genomics-task-statusReason.json index a6f6551..79257da 100644 --- a/CodeSystem/CodeSystem-Genomics-task-statusReason.json +++ b/CodeSystem/CodeSystem-Genomics-task-statusReason.json @@ -32,51 +32,51 @@ "content": "complete", "concept": [ { - "code": "FurtherInformationNeeded", + "code": "further-information-needed", "display": "Further Information Needed" }, { - "code": "AwaitingSample", + "code": "awaiting-sample", "display": "Awaiting Sample" }, { - "code": "AwaitingRoDAndOrSample", + "code": "awaiting-rod-and-or-sample", "display": "Awaiting Record of Discussion and/or Sample" }, { - "code": "InvalidRequest", + "code": "invalid-request", "display": "Invalid Request" }, { - "code": "PipelineError", + "code": "pipeline-error", "display": "Pipeline Error" }, { - "code": "TimeForTaskExceeded", + "code": "time-for-task-exceeded", "display": "Time For Task Exceeded" }, { - "code": "UnableToInterpret", + "code": "unable-to-interpret", "display": "Unable To Interpret" }, { - "code": "SampleSubOptimal", + "code": "sample-sub-optimal", "display": "Sample Sub-Optimal" }, { - "code": "TaskNoLongerRequired", + "code": "task-no-longer-required", "display": "Task No Longer Required" }, { - "code": "NoSampleProvided", + "code": "no-sample-provided", "display": "No Sample Provided" }, { - "code": "ScheduledDelay", + "code": "scheduled-delay", "display": "Scheduled Delay" }, { - "code": "AwaitingOrderDetail", + "code": "awaiting-order-detail", "display": "Awaiting Order Detail" } ] diff --git a/CodeSystem/CodeSystem-Genomics-test-types.json b/CodeSystem/CodeSystem-Genomics-test-types.json index df909ef..8777ee8 100644 --- a/CodeSystem/CodeSystem-Genomics-test-types.json +++ b/CodeSystem/CodeSystem-Genomics-test-types.json @@ -13,10 +13,10 @@ "title": "Test Type Genomics", "status": "draft", "date": "2022-12-21T11:27:52.3231281+00:00", - "publisher": "NHS Digital", + "publisher": "NHS England", "contact": [ { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", @@ -27,7 +27,7 @@ } ], "description": "A set of codes use to identify the category of genomic test types", - "copyright": "Copyright © 2022 NHS Digital", + "copyright": "Copyright © 2022 NHS England", "caseSensitive": true, "content": "complete", "concept": [ diff --git a/Questionnaire/NHSDigital-Questionnaire-Genomics-Example.json b/Questionnaire/NHSDigital-Questionnaire-Genomics-Example.json index 55bee3c..3884bf7 100644 --- a/Questionnaire/NHSDigital-Questionnaire-Genomics-Example.json +++ b/Questionnaire/NHSDigital-Questionnaire-Genomics-Example.json @@ -24,7 +24,7 @@ ] }, { - "name": "NHS Digital", + "name": "NHS England", "telecom": [ { "system": "email", diff --git a/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json b/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json index 5aa747c..d4b6cad 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrder-Cancellation-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "TaskNoLongerRequired", + "code": "task-no-longer-required", "display": "Task No Longer Required" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrder-Example.json b/Task/Task-NonWGSRareDiseaseTestOrder-Example.json index 72bf13c..ddb8928 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrder-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrder-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json index 9ac4a81..cfde7d1 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingSample", + "code": "awaiting-sample", "display": "Awaiting Sample" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json index 2b4b188..9c411f5 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FetalScenario-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FollowupTest-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FollowupTest-Example.json index 5fa80ad..129ff52 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FollowupTest-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-FollowupTest-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-HaemOncology-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-HaemOncology-Example.json index 5cd3da0..5fcdb75 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-HaemOncology-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-HaemOncology-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Reanlaysis-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Reanlaysis-Example.json index 510dcb3..e2c5429 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Reanlaysis-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-Reanlaysis-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json index 24e2932..2ef91e5 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderAccepted-SufficientSample-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json index 7160223..d116862 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderCancelled-FollowupTest-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "TaskNoLongerRequired", + "code": "task-no-longer-required", "display": "Task No Longer Required" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "Interpretation", + "code": "interpretation", "display": "Interpretation" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderCompleted-CascadeTestingExample.json b/Task/Task-NonWGSRareDiseaseTestOrderCompleted-CascadeTestingExample.json index 7898ded..78d80ed 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderCompleted-CascadeTestingExample.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderCompleted-CascadeTestingExample.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "DistributeReport", + "code": "distribute-report", "display": "Distribute Report" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderCompleted-FollowupTest-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderCompleted-FollowupTest-Example.json index 75fcd30..d501f57 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderCompleted-FollowupTest-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderCompleted-FollowupTest-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "DistributeReport", + "code": "distribute-report", "display": "Distribute Report" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderForwarded-OutOfCountry-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderForwarded-OutOfCountry-Example.json index 226b97f..164d8fb 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderForwarded-OutOfCountry-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderForwarded-OutOfCountry-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "RemoteProcessingRequired", + "code": "remote-processing-required", "display": "Remote Processing Required" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderForwareded-CancerSolidTumor-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderForwareded-CancerSolidTumor-Example.json index 306967a..76e6a40 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderForwareded-CancerSolidTumor-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderForwareded-CancerSolidTumor-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "SamplePreparation", + "code": "sample-preparation", "display": "Sample Preparation" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json index 1237b99..719e4ed 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderHold-Example.json @@ -6,8 +6,8 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "NoSampleProvided", - "display": "NoSampleProvided" + "code": "no-sample-provided", + "display": "no-sample-provided" } ] }, @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json index 457e359..b5dcf51 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-CancerSolidTumor-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "FurtherInformationNeeded", + "code": "further-information-needed", "display": "Further Information Needed" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-Example.json index b5aba3d..0ccaaad 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "InvalidRequest", + "code": "invalid-request", "display": "Invalid Request" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json index 6106274..455ac2a 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-FetalScenario-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "FurtherInformationNeeded", + "code": "further-information-needed", "display": "Further Information Needed" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request Sample Alignment" } ] diff --git a/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json b/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json index cb726a9..0cab172 100644 --- a/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json +++ b/Task/Task-NonWGSRareDiseaseTestOrderRejected-InsufficientSample-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "SampleSubOptimal", + "code": "sample-sub-optimal", "display": "Sample Sub-Optimal" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-NonWGSTestOrderAccepted-VariantReinterpretation-Example.json b/Task/Task-NonWGSTestOrderAccepted-VariantReinterpretation-Example.json index 5c45023..824172a 100644 --- a/Task/Task-NonWGSTestOrderAccepted-VariantReinterpretation-Example.json +++ b/Task/Task-NonWGSTestOrderAccepted-VariantReinterpretation-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-NonWGSTestOrderFormAccepted-UsingStoredSample-Example.json b/Task/Task-NonWGSTestOrderFormAccepted-UsingStoredSample-Example.json index d74eb9c..baef25b 100644 --- a/Task/Task-NonWGSTestOrderFormAccepted-UsingStoredSample-Example.json +++ b/Task/Task-NonWGSTestOrderFormAccepted-UsingStoredSample-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-TestOrderFormAccepted-StorageOfMaterial-Example.json b/Task/Task-TestOrderFormAccepted-StorageOfMaterial-Example.json index 74bd850..aab173b 100644 --- a/Task/Task-TestOrderFormAccepted-StorageOfMaterial-Example.json +++ b/Task/Task-TestOrderFormAccepted-StorageOfMaterial-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrder-Example.json b/Task/Task-WGSRareDiseaseTestOrder-Example.json index 3813fa4..39a574f 100644 --- a/Task/Task-WGSRareDiseaseTestOrder-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrder-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json index 5e299e7..1c6d536 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-DirectToLab-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json index 73218f7..1df79f2 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingRoDAndOrSample", + "code": "awaiting-rod-and-or-sample", "display": "Awaiting Record of Discussion and/or Sample" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json index 6fb36ba..2122e92 100644 --- a/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderAccepted-TrioTestingProband-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Requestt" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderCompleted-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderCompleted-DirectToLab-Example.json index fc1f1b9..21db6df 100644 --- a/Task/Task-WGSRareDiseaseTestOrderCompleted-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderCompleted-DirectToLab-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "DistributeReport", + "code": "distribute-report", "display": "Distribute Report" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderCompleted-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderCompleted-TrioTestingProband-Example.json index 1b3ccb0..c2d685f 100644 --- a/Task/Task-WGSRareDiseaseTestOrderCompleted-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderCompleted-TrioTestingProband-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "DistributeReport", + "code": "distribute-report", "display": "Distribute Report" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json b/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json index 7f26303..c9ca0ed 100644 --- a/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderForwarded-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/business-status-genomics", - "code": "SampleReceived", + "code": "sample-received", "display": "Sample Received" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "SamplePreparation", + "code": "sample-preparation", "display": "Sample Preparation" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json index dc1acd7..13c7fc7 100644 --- a/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderHold-DirectToLab-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingRoDAndOrSample", + "code": "awaiting-rod-and-or-sample", "display": "Awaiting Record of Discussion and/or Sample" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json b/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json index a4d1a01..00e1a32 100644 --- a/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderHold-TrioTestingProband-Example.json @@ -6,7 +6,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingRoDAndOrSample", + "code": "awaiting-rod-and-or-sample", "display": "Awaiting Record of Discussion and/or Sample" } ] @@ -17,7 +17,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "RequestSampleAlignment", + "code": "request-sample-alignment", "display": "Request & Sample Alignment" } ] diff --git a/Task/Task-WGSRareDiseaseTestOrderRequested-DirectToLab-Example.json b/Task/Task-WGSRareDiseaseTestOrderRequested-DirectToLab-Example.json index be9ae30..0a4b775 100644 --- a/Task/Task-WGSRareDiseaseTestOrderRequested-DirectToLab-Example.json +++ b/Task/Task-WGSRareDiseaseTestOrderRequested-DirectToLab-Example.json @@ -8,7 +8,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-code-genomics", - "code": "ProcessGenomicTestRequest", + "code": "process-genomic-test-request", "display": "Process Genomic Test Request" } ] diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json index 92b1513..a10bee8 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example-update.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example-update.json @@ -20,7 +20,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingSample", + "code": "awaiting-sample", "display": "Awaiting Sample" } ] diff --git a/Task/UKCore-Task-DPYDSequencingTask-Example.json b/Task/UKCore-Task-DPYDSequencingTask-Example.json index 1c184b4..0e1f042 100644 --- a/Task/UKCore-Task-DPYDSequencingTask-Example.json +++ b/Task/UKCore-Task-DPYDSequencingTask-Example.json @@ -23,7 +23,7 @@ "coding": [ { "system": "https://fhir.nhs.uk/CodeSystem/task-statusReason-genomics", - "code": "AwaitingSample", + "code": "awaiting-sample", "display": "Awaiting Sample" } ] From 00e90e24ceb6f749a5cd227a9592d2489abd0337 Mon Sep 17 00:00:00 2001 From: Omar Khan Date: Mon, 29 Jul 2024 10:45:49 +0100 Subject: [PATCH 5/5] Additional codesystem code changes --- Bundle/Bundle-WGSRoD-Example.json | 2 +- ...on => CodeSystem-Genomics-additional-infotype.json} | 0 .../CodeSystem-Genomics-patient-choice-category.json | 10 +++++----- CodeSystem/CodeSystem-Genomics-patient-consultee.json | 2 +- .../CodeSystem-Genomics-research-participation.json | 8 ++++---- .../ConceptMap-Genomics-reportdeliverymethod.json | 2 +- ...Digital-QuestionnaireResponse-Genomics-Example.json | 2 +- .../QuestionnaireResponse-RoD-Example.json | 2 +- ...nnaireResponse-RoD-PheobeSmithamFather-Example.json | 2 +- ...nnaireResponse-RoD-PheobeSmithamMother-Example.json | 2 +- ValueSet/ValueSet-Genomics-patient-guardian-types.json | 2 +- 11 files changed, 17 insertions(+), 17 deletions(-) rename CodeSystem/{CodeSystem-Genomics-AdditionalInfoType.json => CodeSystem-Genomics-additional-infotype.json} (100%) diff --git a/Bundle/Bundle-WGSRoD-Example.json b/Bundle/Bundle-WGSRoD-Example.json index b2cac97..45be749 100644 --- a/Bundle/Bundle-WGSRoD-Example.json +++ b/Bundle/Bundle-WGSRoD-Example.json @@ -213,7 +213,7 @@ { "valueCoding": { "system": "https://fhir.nhs.uk/CodeSystem/patient-choice-category-genomics", - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult(made their own choice)" } } diff --git a/CodeSystem/CodeSystem-Genomics-AdditionalInfoType.json b/CodeSystem/CodeSystem-Genomics-additional-infotype.json similarity index 100% rename from CodeSystem/CodeSystem-Genomics-AdditionalInfoType.json rename to CodeSystem/CodeSystem-Genomics-additional-infotype.json diff --git a/CodeSystem/CodeSystem-Genomics-patient-choice-category.json b/CodeSystem/CodeSystem-Genomics-patient-choice-category.json index ad6b96e..da20819 100644 --- a/CodeSystem/CodeSystem-Genomics-patient-choice-category.json +++ b/CodeSystem/CodeSystem-Genomics-patient-choice-category.json @@ -32,23 +32,23 @@ "content": "complete", "concept": [ { - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult (made their own choice)" }, { - "code": "AdultLackCapacity", + "code": "adult-lack-capacity", "display": "Adult lacking capacity (choices advised by consultee)" }, { - "code": "Child", + "code": "child", "display": "Child (parent or guardian choices)" }, { - "code": "Clinician", + "code": "clinician", "display": "Clinician has agreed to the test (in the patient`s best interest)" }, { - "code": "Deceased", + "code": "deceased", "display": "Deceased (choices made on behalf of deceased individual)" } ] diff --git a/CodeSystem/CodeSystem-Genomics-patient-consultee.json b/CodeSystem/CodeSystem-Genomics-patient-consultee.json index 1159fbd..48a081f 100644 --- a/CodeSystem/CodeSystem-Genomics-patient-consultee.json +++ b/CodeSystem/CodeSystem-Genomics-patient-consultee.json @@ -32,7 +32,7 @@ "content": "complete", "concept": [ { - "code": "Consultee", + "code": "consultee", "display": "Consultee" } ] diff --git a/CodeSystem/CodeSystem-Genomics-research-participation.json b/CodeSystem/CodeSystem-Genomics-research-participation.json index bbff1ea..db99fc1 100644 --- a/CodeSystem/CodeSystem-Genomics-research-participation.json +++ b/CodeSystem/CodeSystem-Genomics-research-participation.json @@ -32,19 +32,19 @@ "content": "complete", "concept": [ { - "code": "LiketoDiscussLater", + "code": "like-to-discuss-later", "display": "Patient would like to discuss at a later date" }, { - "code": "PatientLackCapacity", + "code": "patient-lack-capacity", "display": "Patient lacks capacity and no consultee available" }, { - "code": "InappropriatetoDiscuss", + "code": "inappropriate-to-discuss", "display": "Inappropriate to have discussion" }, { - "code": "Other", + "code": "other", "display": "Other" } ] diff --git a/ConceptMap/ConceptMap-Genomics-reportdeliverymethod.json b/ConceptMap/ConceptMap-Genomics-reportdeliverymethod.json index 42c35d8..1c05864 100644 --- a/ConceptMap/ConceptMap-Genomics-reportdeliverymethod.json +++ b/ConceptMap/ConceptMap-Genomics-reportdeliverymethod.json @@ -27,7 +27,7 @@ { "element": [ { - "code": "postaL", + "code": "postal", "display": "POSTAL", "target": [ { diff --git a/QuestionnaireResponse/NHSDigital-QuestionnaireResponse-Genomics-Example.json b/QuestionnaireResponse/NHSDigital-QuestionnaireResponse-Genomics-Example.json index 140df0b..f31aaec 100644 --- a/QuestionnaireResponse/NHSDigital-QuestionnaireResponse-Genomics-Example.json +++ b/QuestionnaireResponse/NHSDigital-QuestionnaireResponse-Genomics-Example.json @@ -160,7 +160,7 @@ { "valueCoding": { "system": "https://fhir.nhs.uk/CodeSystem/patient-choice-category-genomics", - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult(made their own choice)" } } diff --git a/QuestionnaireResponse/QuestionnaireResponse-RoD-Example.json b/QuestionnaireResponse/QuestionnaireResponse-RoD-Example.json index da6e616..975b8da 100644 --- a/QuestionnaireResponse/QuestionnaireResponse-RoD-Example.json +++ b/QuestionnaireResponse/QuestionnaireResponse-RoD-Example.json @@ -155,7 +155,7 @@ { "valueCoding": { "system": "https://fhir.nhs.uk/CodeSystem/patient-choice-category-genomics", - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult(made their own choice)" } } diff --git a/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamFather-Example.json b/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamFather-Example.json index c12ff44..6b97307 100644 --- a/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamFather-Example.json +++ b/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamFather-Example.json @@ -159,7 +159,7 @@ { "valueCoding": { "system": "https://fhir.nhs.uk/CodeSystem/patient-choice-category-genomics", - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult(made their own choice)" } } diff --git a/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamMother-Example.json b/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamMother-Example.json index 9e82403..44c6287 100644 --- a/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamMother-Example.json +++ b/QuestionnaireResponse/QuestionnaireResponse-RoD-PheobeSmithamMother-Example.json @@ -159,7 +159,7 @@ { "valueCoding": { "system": "https://fhir.nhs.uk/CodeSystem/patient-choice-category-genomics", - "code": "AdultOwnChoice", + "code": "adult-own-choice", "display": "Adult(made their own choice)" } } diff --git a/ValueSet/ValueSet-Genomics-patient-guardian-types.json b/ValueSet/ValueSet-Genomics-patient-guardian-types.json index 83570fc..5b54597 100644 --- a/ValueSet/ValueSet-Genomics-patient-guardian-types.json +++ b/ValueSet/ValueSet-Genomics-patient-guardian-types.json @@ -27,7 +27,7 @@ "system": "https://fhir.nhs.uk/CodeSystem/patient-consultee-genomics", "concept": [ { - "code": "Consultee", + "code": "consultee", "display": "Consultee" } ]