From 2f5617863af788d5d666c159516dab779e951703 Mon Sep 17 00:00:00 2001 From: Basilio Bogado <541149+basiliskus@users.noreply.github.com> Date: Tue, 30 Jan 2024 09:52:33 -0800 Subject: [PATCH] Add MN FHIR example to send to RS for final delivery (#809) * Increased maxkb for large files pre-commit check to 2000 kb * Added transformed fhir example and renamed MN files to clarify point in flow * Updated readme links to modified files --- .pre-commit-config.yaml | 14 +- ...anslation_from_initial_hl7_ingestion.fhir} | 0 ...rmation_from_initial_fhir_translation.fhir | 27709 ++++++++++++++++ ...nslation_from_fhir_for_final_delivery.hl7} | 0 examples/README.md | 5 +- 5 files changed, 27719 insertions(+), 9 deletions(-) rename examples/MN/{004_MN_ORU_R01_NBS_translation_from_initial_hl7_ingestion.fhir => 004_MN_ORU_R01_NBS_1_translation_from_initial_hl7_ingestion.fhir} (100%) mode change 100755 => 100644 create mode 100644 examples/MN/004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir rename examples/MN/{004_MN_ORU_R01_NBS_translation_from_fhir_for_final_delivery.hl7 => 004_MN_ORU_R01_NBS_3_translation_from_fhir_for_final_delivery.hl7} (100%) mode change 100755 => 100644 diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 95ba1642e..6aee4a0e4 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -3,7 +3,7 @@ repos: rev: v4.3.0 hooks: - id: check-added-large-files - args: ['--maxkb=700'] + args: ["--maxkb=2000"] - id: check-merge-conflict - id: check-json - id: check-shebang-scripts-are-executable @@ -15,12 +15,12 @@ repos: - id: no-commit-to-branch - id: trailing-whitespace - - repo: https://github.com/Yelp/detect-secrets - rev: v1.4.0 - hooks: - - id: detect-secrets - args: ['--baseline', '.secrets.baseline'] - exclude: (mock_credentials|.+\/JjwtEngine.java) + - repo: https://github.com/Yelp/detect-secrets + rev: v1.4.0 + hooks: + - id: detect-secrets + args: ["--baseline", ".secrets.baseline"] + exclude: (mock_credentials|.+\/JjwtEngine.java) - repo: local hooks: diff --git a/examples/MN/004_MN_ORU_R01_NBS_translation_from_initial_hl7_ingestion.fhir b/examples/MN/004_MN_ORU_R01_NBS_1_translation_from_initial_hl7_ingestion.fhir old mode 100755 new mode 100644 similarity index 100% rename from examples/MN/004_MN_ORU_R01_NBS_translation_from_initial_hl7_ingestion.fhir rename to examples/MN/004_MN_ORU_R01_NBS_1_translation_from_initial_hl7_ingestion.fhir diff --git a/examples/MN/004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir b/examples/MN/004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir new file mode 100644 index 000000000..239ec0ae2 --- /dev/null +++ b/examples/MN/004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir @@ -0,0 +1,27709 @@ +{ + "resourceType": "Bundle", + "id": "1705511861639940150.e2c69100-24af-4bbd-86bf-2f29be816edf", + "meta": { + "lastUpdated": 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+ }, + "subject": { + "reference": "Patient/1705511863936183976.d0b733fe-5ee0-4fb9-823f-62cb63cb0555" + }, + "effectiveDateTime": "2023-06-03T04:50:00Z", + "_effectiveDateTime": { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/hl7v2-date-time", + "valueString": "20230603045000" + } + ] + }, + "issued": "2023-06-06T19:16:13Z", + "_issued": { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/hl7v2-date-time", + "valueString": "20230606191613" + } + ] + }, + "result": [ + { + "reference": "Observation/1705511864551562362.08011d99-ed82-4a95-ad31-c0814bb59c70" + } + ] + } + }, + { + "fullUrl": "Patient/1705511863936183976.d0b733fe-5ee0-4fb9-823f-62cb63cb0555", + "resource": { + "resourceType": "Patient", + "id": "1705511863936183976.d0b733fe-5ee0-4fb9-823f-62cb63cb0555", + "identifier": [ + { + "type": { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/v2-0203", + "code": "MR", + "display": "Medical record number" + } + ] + }, + "system": "CRPMRN", + "value": "11102779" + } + ], + "name": [ + { + "text": "TestValue", + "family": "SMITH", + "given": [ + "BB SARAH" + ] + } + ], + "birthDate": "2023-05-04", + "_birthDate": { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/hl7v2-date-time", + "valueString": "20230504131000" + }, + { + "url": "http://hl7.org/fhir/StructureDefinition/patient-birthTime", + "valueDateTime": "2023-05-04T13:10:00Z" + } + ] + }, + "deceasedBoolean": false, + "address": [ + { + "use": "home", + "line": [ + "555 STATE HIGHWAY 13" + ], + "city": "DEER CREEK", + "state": "MN", + "postalCode": "565279657" + } + ], + "contact": [ + { + "relationship": [ + { + "coding": [ + { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/code-index-name", + "valueString": "identifier" + } + ], + "system": "HL70063", + "code": "MTH", + "display": "Mother" + } + ], + "text": "Mother" + } + ], + "name": { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/xpn2-given-name", + "valueString": "SADIE" + }, + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/xpn3-second-given-name", + "valueString": "S" + }, + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/xpn7-name-type-code", + "valueString": "L" + } + ], + "use": "official", + "family": "SMITH", + "given": [ + "SADIE", + "S" + ] + }, + "telecom": [ + { + "extension": [ + { + "url": "https://reportstream.cdc.gov/fhir/StructureDefinition/text", + "valueString": "(763)555-5555" + } + ], + "system": "phone", + "value": "(763) 555 5555" + } + ], + "address": { + "use": "home", + "line": [ + "555 STATE HIGHWAY 13" + ], + "city": "DEER CREEK", + "state": "MN", + "postalCode": "565279657", + "country": "USA" + } + }, + { + "relationship": [ + { + "coding": [ + { + "system": "http://terminology.hl7.org/CodeSystem/v3-RoleCode", + "code": "MTH", + "display": "mother" + } + ] + } + ], + "address": { + "use": "home", + "line": [ + "555 STATE HIGHWAY 13" + ], + "city": "DEER CREEK", + "state": "MN", + "postalCode": "565279657" + } + } + ] + } + } + ] +} diff --git a/examples/MN/004_MN_ORU_R01_NBS_translation_from_fhir_for_final_delivery.hl7 b/examples/MN/004_MN_ORU_R01_NBS_3_translation_from_fhir_for_final_delivery.hl7 old mode 100755 new mode 100644 similarity index 100% rename from examples/MN/004_MN_ORU_R01_NBS_translation_from_fhir_for_final_delivery.hl7 rename to examples/MN/004_MN_ORU_R01_NBS_3_translation_from_fhir_for_final_delivery.hl7 diff --git a/examples/README.md b/examples/README.md index dfc6067b4..5fac625e2 100644 --- a/examples/README.md +++ b/examples/README.md @@ -27,8 +27,9 @@ - [003_MN_ORM_O01_NBS_extended.hl7](/examples/MN/003_MN_ORM_O01_NBS_extended.hl7) - [003_MN_ORM_O01_NBS_simplified.hl7](/examples/MN/003_MN_ORM_O01_NBS_simplified.hl7) - [004_MN_ORU_R01_NBS.hl7](/examples/MN/004_MN_ORU_R01_NBS.hl7) -- [004_MN_ORU_R01_NBS_translation_from_initial_hl7_ingestion.fhir](/examples/MN/004_MN_ORU_R01_NBS_translation_from_initial_hl7_ingestion.fhir) -- [004_MN_ORU_R01_NBS_translation_from_fhir_for_final_delivery.hl7](/examples/MN/004_MN_ORU_R01_NBS_translation_from_fhir_for_final_delivery.hl7) +- [004_MN_ORU_R01_NBS_1_translation_from_initial_hl7_ingestion.fhir](/examples/MN/004_MN_ORU_R01_NBS_1_translation_from_initial_hl7_ingestion.fhir) +- [004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir](/examples/MN/004_MN_ORU_R01_NBS_2_transformation_from_initial_fhir_translation.fhir) +- [004_MN_ORU_R01_NBS_3_translation_from_fhir_for_final_delivery.hl7](/examples/MN/004_MN_ORU_R01_NBS_3_translation_from_fhir_for_final_delivery.hl7) - [005_MN_ADT_A01.hl7](/examples/MN/005_MN_ADT_A01.hl7) #### Tennessee