Engagement/nj prework #15529
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| - name: "nj-doh" | ||
| description: "New Jersey Department of Health" | ||
| jurisdiction: "STATE" | ||
| stateCode: "NJ" | ||
| countyName: null | ||
| filters: null | ||
| featureFlags: null | ||
| keys: null | ||
| senders: [] | ||
| receivers: | ||
| - name: "full-elr" | ||
| organizationName: "nj-doh" | ||
| topic: "full-elr" | ||
| customerStatus: "active" | ||
| translation: !<HL7> | ||
| schemaName: "azure:/hl7_mapping/receivers/STLTs/NJ/NJ-receiver-transform.yml" | ||
| useTestProcessingMode: false | ||
| useBatchHeaders: true | ||
| receivingApplicationName: "ELRS" | ||
| receivingApplicationOID: "2.16.840.1.113883.3.1299.5.1.6.1" | ||
| receivingFacilityName: "NJDOH" | ||
| receivingFacilityOID: "2.16.840.1.113883.3.1299" | ||
| messageProfileId: null | ||
| replaceValue: { } | ||
| replaceValueAwithB: { } | ||
| reportingFacilityName: null | ||
| reportingFacilityId: null | ||
| reportingFacilityIdType: null | ||
| suppressQstForAoe: false | ||
| suppressHl7Fields: null | ||
| suppressAoe: false | ||
| defaultAoeToUnknown: false | ||
| replaceUnicodeWithAscii: false | ||
| useBlankInsteadOfUnknown: null | ||
| truncateHDNamespaceIds: true | ||
| truncateHl7Fields: "OBX-23-1,ORC-12-3,OBR-16-3,OBX-17-1,ORC-12-1,OBR-16-1" | ||
| usePid14ForPatientEmail: false | ||
| convertTimestampToDateTime: null | ||
| cliaForOutOfStateTesting: null | ||
| cliaForSender: { } | ||
| phoneNumberFormatting: "STANDARD" | ||
| suppressNonNPI: false | ||
| processingModeCode: null | ||
| replaceDiiWithOid: null | ||
| applyOTCDefault: false | ||
| useOrderingFacilityName: "STANDARD" | ||
| valueSetOverrides: { } | ||
| nameFormat: "STANDARD" | ||
| receivingOrganization: null | ||
| convertPositiveDateTimeOffsetToNegative: false | ||
| stripInvalidCharsRegex: null | ||
| convertDateTimesToReceiverLocalTime: false | ||
| useHighPrecisionHeaderDateTimeFormat: false | ||
| type: "HL7" | ||
| truncationConfig: | ||
| truncateHDNamespaceIds: true | ||
| truncateHl7Fields: | ||
| - "OBX-23-1" | ||
| - "ORC-12-3" | ||
| - "OBR-16-3" | ||
| - "OBX-17-1" | ||
| - "ORC-12-1" | ||
| - "OBR-16-1" | ||
| customLengthHl7Fields: { } | ||
| jurisdictionalFilter: | ||
| - "(Bundle.entry.resource.ofType(ServiceRequest)[0].requester.resolve().organization.resolve().address.state.exists() and Bundle.entry.resource.ofType(ServiceRequest)[0].requester.resolve().organization.resolve().address.state = 'NJ') or (Bundle.entry.resource.ofType(Patient).address.state.exists() and Bundle.entry.resource.ofType(Patient).address.state = 'NJ')" | ||
| qualityFilter: | ||
| # hasOneOf(patient_street, patient_zip_code, patient_phone_number, patient_email) | ||
| - "Bundle.entry.resource.ofType(Patient).where(address.line[0].empty() and address.postalCode.empty() and telecom.where(system = 'phone').value.empty() and telecom.where(system = 'email').value.empty()).count() = 0" | ||
| # hasOneOf(order_test_date, specimen_collection_date_time, test_result_date) | ||
| - "Bundle.entry.resource.ofType(DiagnosticReport).where(basedOn.resolve().extension('https://reportstream.cdc.gov/fhir/StructureDefinition/effective-date').empty() and specimen.resolve().collection.collected.empty() and effective.empty() and issued.empty() and result.resolve().effective.empty()).count() = 0" | ||
| # isValidClia(testing_lab_clia) | ||
| - "Bundle.entry.resource.ofType(ServiceRequest).performer.resolve().identifier.where(type.coding.code = 'CLIA').value.getIdType() = 'CLIA'" | ||
| # hasValidData(patient_last_name, patient_first_name, patient_dob) | ||
| - "Bundle.entry.resource.ofType(Patient).where(name.family.empty() or name.given.empty() or birthDate.empty()).count() = 0" | ||
| # hasValidData(specimen_type) | ||
| - "Bundle.entry.resource.ofType(Specimen).where(type.empty()).count() = 0" | ||
| # hasValidData(message_id) | ||
| - "Bundle.identifier.value.empty().not()" | ||
| # hasValidData(equipment_model_name, test_result) | ||
| - "Bundle.entry.resource.ofType(DiagnosticReport).result.resolve().where(method.empty() or value.coding.code.empty()).count() = 0" | ||
| routingFilter: [ ] | ||
| processingModeFilter: | ||
| # matches(processing_mode_code, P) | ||
| - "Bundle.entry.resource.ofType(MessageHeader).meta.tag.where(system = 'http://terminology.hl7.org/CodeSystem/v2-0103').code = 'P'" | ||
| reverseTheQualityFilter: false | ||
| deidentify: false | ||
| deidentifiedValue: "" | ||
| timing: | ||
| operation: "MERGE" | ||
| numberPerDay: 1440 | ||
| initialTime: "09:40" | ||
| timeZone: "EASTERN" | ||
| maxReportCount: 100 | ||
| whenEmpty: | ||
| action: "NONE" | ||
| onlyOncePerDay: false | ||
| description: "" | ||
| transport: !<SFTP> | ||
| type: SFTP | ||
| host: sftp | ||
| port: 22 | ||
| filePath: ./upload | ||
| credentialName: DEFAULT-SFTP | ||
| conditionFilter: [ ] | ||
| mappedConditionFilter: [ ] | ||
| externalName: null | ||
| enrichmentSchemaNames: ["classpath:/metadata/fhir_transforms/common/suppress-device-information.yml" ] | ||
| timeZone: null | ||
| dateTimeFormat: "OFFSET" |
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| ## Suppresses Device information OBX-18-1,OBX-18-2,OBX-18-3 | ||
| elements: | ||
|
|
||
| ##OBX-18-1 | ||
| - name: suppress-device-name | ||
| resource: 'Bundle.entry.resource.ofType(Device).identifier' | ||
| value: [ '""' ] | ||
| bundleProperty: '%resource.value' | ||
|
|
||
| ##OBX-18-2 | ||
| - name: suppess-device-namespace_id | ||
| resource: 'Bundle.entry.resource.ofType(Device).identifier' | ||
| condition: '%resource.extension("https://reportstream.cdc.gov/fhir/StructureDefinition/assigning-authority").extension("https://reportstream.cdc.gov/fhir/StructureDefinition/namespace-id").exists()' | ||
| bundleProperty: [ '%resource.extension("https://reportstream.cdc.gov/fhir/StructureDefinition/assigning-authority").extension("https://reportstream.cdc.gov/fhir/StructureDefinition/namespace-id").value[x]' ] | ||
| value: [ '""' ] | ||
|
|
||
| ##OBX-18-3 | ||
| - name: suppress-device-universal-id | ||
| resource: 'Bundle.entry.resource.ofType(Device).identifier' | ||
| condition: '%resource.extension("https://reportstream.cdc.gov/fhir/StructureDefinition/assigning-authority").extension("https://reportstream.cdc.gov/fhir/StructureDefinition/universal-id").exists()' | ||
| bundleProperty: [ '%resource.extension("https://reportstream.cdc.gov/fhir/StructureDefinition/assigning-authority").extension("https://reportstream.cdc.gov/fhir/StructureDefinition/universal-id").value[x]' ] | ||
| value: [ '""' ] | ||
|
|
||
| ##OBX-18-3 different mappings | ||
| - name: suppress-device-type-id | ||
| resource: 'Bundle.entry.resource.ofType(Device).identifier' | ||
| bundleProperty: [ '%resource.type.coding.code' ] | ||
| value: [ '""' ] | ||
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| hl7Class: ca.uhn.hl7v2.model.v251.message.ORU_R01 | ||
|
|
||
| extends: classpath:/metadata/hl7_mapping/ORU_R01/ORU_R01-base.yml | ||
| elements: | ||
| # MSH 3-1 | ||
| - name: nj-sending-application-namespace-id | ||
| value: [ '"CDC PRIME - Atlanta, Georgia (Dekalb)"' ] | ||
| hl7Spec: [ MSH-3-1 ] | ||
|
|
||
| # MSH 3-2 | ||
| - name: nj-sending-application-universal-id | ||
| value: [ '"2.16.840.1.114222.4.1.237821"' ] | ||
| hl7Spec: [ MSH-3-2 ] | ||
|
|
||
| # MSH 3-3 | ||
| - name: nj-sending-application-universal-id-type | ||
| value: [ '"ISO"' ] | ||
| hl7Spec: [ MSH-3-3 ] | ||
|
|
||
| # MSH 4-1 | ||
| - name: nj-reporting-facility-name | ||
| value: [ '"CDC PRIME"' ] | ||
| hl7Spec: [ MSH-4-1 ] | ||
|
|
||
| # MSH 4-2 | ||
| - name: nj-reporting-facility-id | ||
| value: [ '"11D2030855"' ] | ||
| hl7Spec: [ MSH-4-2 ] | ||
|
|
||
| # MSH 4-3 | ||
| - name: nj-reporting-facility-id-type | ||
| value: [ '"CLIA"' ] | ||
| hl7Spec: [ MSH-4-3 ] | ||
|
|
||
| # MSH 5 | ||
| - name: nj-receiving-application-namespace-id | ||
| value: [ '"ELRS"' ] | ||
| hl7Spec: [ MSH-5-1 ] | ||
|
|
||
| - name: nj-receiving-application-universal-id | ||
| value: [ '"2.16.840.1.113883.3.1299.5.1.6.1"' ] | ||
| hl7Spec: [ MSH-5-2 ] | ||
|
|
||
| - name: nj-receiving-application-universal-id-type | ||
| value: [ '"ISO"' ] | ||
| hl7Spec: [ MSH-5-3 ] | ||
|
|
||
| # MSH 6 | ||
| - name: nj-receiving-facility-namespace-id | ||
| value: [ '"NJDOH"' ] | ||
| hl7Spec: [ MSH-6-1 ] | ||
|
|
||
| - name: nj-receiving-facility-universal-id | ||
| value: [ '"2.16.840.1.113883.3.1299"' ] | ||
| hl7Spec: [ MSH-6-2 ] | ||
|
|
||
| - name: nj-receiving-facility-universal-id-type | ||
| value: [ '"ISO"' ] | ||
| hl7Spec: [ MSH-6-3 ] | ||
|
There was a problem hiding this comment. These fields need to be suppressed: OBX-18-1,OBX-18-2,OBX-18-3 There was a problem hiding this comment. They are getting suppressed in the enrichment schema suppress-device-information. There was a problem hiding this comment. Was truncateHDNamespaceIds: true taken into account here? There was a problem hiding this comment. That's a setting built into the pipeline. All HD fields get truncated. |
||
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| Original file line number | Diff line number | Diff line change |
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| MSH|^~\&|CDC PRIME - Atlanta,^2.16.840.1.114222.4.1.237821^ISO|CDC PRIME^11D2030855^CLIA|ELRS^2.16.840.1.113883.3.1299.5.1.6.1^ISO|NJDOH^2.16.840.1.113883.3.1299^ISO|20240214210646+0000||ORU^R01^ORU_R01|3ad338c6-125d-4141-9ce1-6040481304ab|P|2.5.1|||NE|NE|USA|UNICODE UTF-8|ENG^English^ISO||PHLabReport-NoAck^ELR_Receiver^2.16.840.1.113883.9.11^ISO | ||
| SFT|Centers for Disease Control and Prevention|0.2-SNAPSHOT|PRIME ReportStream|0.2-SNAPSHOT||20240214163856+0000 | ||
| PID|1||3551359f-bd1c-411e-b930-789ac694e75f^^^Testing Lab&12D4567890&CLIA^PI^Testing Lab&12D4567890&CLIA||Diggory^Cedrick^Charles^^^^L||20001218|M||2076-8^pacific^^^^^2.5.1^^pacific|123 Main St^^Anchorage^NJ^99501^USA^^^Anchorage||(340) 555 5555^PRS^CP^^1^340^5555555^^^^^(340) 555 5555|||||||||N^Not Hispanic or Latino^HL70189^^^^2.9^^Not Hispanic or Latino||||||||N | ||
| ORC|RE|3ad338c6-125d-4141-9ce1-6040481304ab^Testing Lab^12D4567890^CLIA|3ad338c6-125d-4141-9ce1-6040481304ab^Testing Lab^12D4567890^CLIA|||||||||1245319599^McTester^Phil^^^^^^NPI&2.16.840.1.113883.4.6&ISO^L^^^NPI||(530) 867 5309^WPN^PH^^1^530^8675309^^^^^(530) 867 5309|20240214210646+0000||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|(530) 867 5309^WPN^PH^^1^530^8675309^^^^^(530) 867 5309|321 Ocean Drive^^Houston^NJ^77001^USA | ||
| OBR|1|3ad338c6-125d-4141-9ce1-6040481304ab^Testing Lab^12D4567890^CLIA|3ad338c6-125d-4141-9ce1-6040481304ab^Testing Lab^12D4567890^CLIA|95941-1^Influenza virus A and B and SARS-CoV-2 (COVID-19) and Respiratory syncytial virus RNA panel - Respiratory system specimen by NAA with probe detection^LN|||20240214205146+0000|||||||||1245319599^McTester^Phil^^^^^^NPI&2.16.840.1.113883.4.6&ISO^L^^^NPI|(530) 867 5309^WPN^PH^^1^530^8675309^^^^^(530) 867 5309|||||20240214210646+0000|||F | ||
| OBX|1|CWE|85479-4^Respiratory syncytial virus RNA [Presence] in Upper respiratory specimen by NAA with probe detection^LN^^^^^^RSV||260373001^Detected^SCT|||A^Abnormal^HL70078^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||Alinity m Resp-4-Ple^Alinity m^^^^^^^Alinity m Resp-4-Plex_Abbott Molecular Inc.||20240214210646+0000||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA | ||
| OBX|2|CWE|94500-6^SARS-CoV-2 (COVID-19) RNA [Presence] in Respiratory system specimen by NAA with probe detection^LN^^^^^^COVID-19||260373001^Detected^SCT|||A^Abnormal^HL70078^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||^Alinity m||20240214210646+0000||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA | ||
| OBX|3|CWE|85478-6^Influenza virus B RNA [Presence] in Upper respiratory specimen by NAA with probe detection^LN^^^^^^Flu B||260373001^Detected^SCT|||A^Abnormal^HL70078^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||Alinity m Resp-4-Ple^Alinity m^^^^^^^Alinity m Resp-4-Plex_Abbott Molecular Inc.||20240214210646+0000||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA | ||
| OBX|4|CWE|95419-8^Has symptoms related to condition of interest^LN^^^^2.69^^Has symptoms related to condition of interest||Y^Yes^HL70136|||^^^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|||||QST | ||
| OBX|5|DT|11368-8^Illness or injury onset date and time^LN^^^^^^Illness or injury onset date and time||20240213000000+0000|||^^^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|||||QST | ||
| OBX|6|CWE|82810-3^Pregnancy status^LN^^^^2.68^^Pregnancy status||60001007^Not pregnant^SCT|||^^^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|||||QST | ||
| OBX|7|CWE|95418-0^Employed in a healthcare setting^LN^^^^2.69^^Employed in a healthcare setting||N^No^HL70136|||^^^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|||||QST | ||
| OBX|8|CWE|95421-4^Resides in a congregate care setting^LN^^^^2.69^^Resides in a congregate care setting||N^No^HL70136|||^^^^^^2.7|||F|||20240214205146+0000|12D4567890^Testing Lab^CLIA||||||||Testing Lab^L^^^^CLIA&2.16.840.1.113883.4.7&ISO^XX^^^12D4567890|123 Beach Way^^Houston^NJ^77001^USA|||||QST | ||
| SPM|1|3ad338c6-125d-4141-9ce1-6040481304ab&Testing Lab&12D4567890&CLIA^3ad338c6-125d-4141-9ce1-6040481304ab&Testing Lab&12D4567890&CLIA||258500001^Nasopharyngeal swab^SCT^^^^2.67^^Nasopharyngeal swab||||87100004^Topography unknown (body structure)^SCT^^^^^^Topography unknown (body structure)|||||||||20240214205146+0000|20240214205146+0000 |
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These can all be suppressed by overiding element "obx-equipment-instance-identifier" in the mappings
condition: false
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That does make it a lot easier. I was also trying to start using enrichment schemas for stuff like that, but this is a good example of how much more complicated transforms are in FHIR to FHIR.