From ad51926bbb062be0970064e4869327b41dea29f5 Mon Sep 17 00:00:00 2001 From: Paul-Christian Volkmer Date: Sat, 5 Apr 2025 15:44:43 +0200 Subject: [PATCH 1/2] chore: update to DNPM-Datamodel 2.1 preview --- src/lib.rs | 32 +- src/mtb.rs | 1887 ++++++++++++++++-------- tests/mv64e-mtb-fake-patient.json | 2244 ++++++++++++++++++++++++++++- 3 files changed, 3561 insertions(+), 602 deletions(-) diff --git a/src/lib.rs b/src/lib.rs index 492b0d2..46a31c6 100644 --- a/src/lib.rs +++ b/src/lib.rs @@ -58,37 +58,45 @@ impl Mtb { care_plans: None, claim_responses: None, claims: None, - diagnoses: None, + diagnoses: vec![], performance_status: None, - episode: None, - episodes_of_care: None, - genetic_counselling_requests: None, + episodes_of_care: vec![], histology_reports: None, guideline_therapies: None, - molecular_therapies: None, ngs_reports: None, ihc_reports: None, - patient: MtbPatient { - address: None, + patient: Patient { + address: Address { + municipality_code: String::new(), + }, age: None, birth_date: String::new(), date_of_death: None, gender: CodingGender { - code: Gender::Male, + code: GenderCode::Female, display: None, system: None, version: None, }, id: patient_id.to_string(), - health_insurance: None, + health_insurance: HealthInsurance { + health_insurance_type: CodingHealthInsurance { + code: CodingHealthInsuranceCode::Bei, + display: None, + system: None, + version: None, + }, + reference: None, + }, vital_status: None, + managing_site: None, }, - recommendations: None, responses: None, specimens: None, - study_inclusion_requests: None, guideline_procedures: None, - therapies: None, + follow_ups: None, + prior_diagnostic_reports: None, + systemic_therapies: None, } } } diff --git a/src/mtb.rs b/src/mtb.rs index 83b4a06..03166a3 100644 --- a/src/mtb.rs +++ b/src/mtb.rs @@ -13,23 +13,18 @@ pub struct Mtb { #[serde(skip_serializing_if = "Option::is_none")] pub claims: Option>, - #[serde(skip_serializing_if = "Option::is_none")] - pub diagnoses: Option>, + pub diagnoses: Vec, + + pub episodes_of_care: Vec, #[serde(skip_serializing_if = "Option::is_none")] - pub episode: Option, + pub follow_ups: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub episodes_of_care: Option>, + pub guideline_procedures: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub genetic_counselling_requests: Option>, - - #[serde(skip_serializing_if = "Option::is_none")] - pub guideline_procedures: Option>, - - #[serde(skip_serializing_if = "Option::is_none")] - pub guideline_therapies: Option>, + pub guideline_therapies: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub histology_reports: Option>, @@ -38,18 +33,15 @@ pub struct Mtb { pub ihc_reports: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub molecular_therapies: Option>, + pub ngs_reports: Option>, - #[serde(skip_serializing_if = "Option::is_none")] - pub ngs_reports: Option>, - - pub patient: MtbPatient, + pub patient: Patient, #[serde(skip_serializing_if = "Option::is_none")] pub performance_status: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub recommendations: Option>, + pub prior_diagnostic_reports: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub responses: Option>, @@ -58,10 +50,7 @@ pub struct Mtb { pub specimens: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub study_inclusion_requests: Option>, - - #[serde(skip_serializing_if = "Option::is_none")] - pub therapies: Option>, + pub systemic_therapies: Option>, } #[derive(Debug, Serialize, Deserialize)] @@ -69,35 +58,37 @@ pub struct Mtb { #[serde(rename_all = "camelCase")] pub struct MtbCarePlan { #[serde(skip_serializing_if = "Option::is_none")] - pub diagnosis: Option, + pub genetic_counseling_recommendation: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub genetic_counseling_recommendation: Option, + pub histology_reevaluation_requests: Option>, pub id: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub indication: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, + pub issued_on: String, #[serde(skip_serializing_if = "Option::is_none")] pub medication_recommendations: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub no_target_finding: Option, + pub notes: Option>, + + pub patient: Reference, #[serde(skip_serializing_if = "Option::is_none")] - pub notes: Option, - - pub patient: Patient, + pub procedure_recommendations: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub reason: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub study_enrollment_recommendations: Option>, + pub rebiopsy_requests: Option>, + + #[serde(skip_serializing_if = "Option::is_none")] + pub status_reason: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub study_enrollment_recommendations: Option>, } #[derive(Debug, Serialize, Deserialize)] @@ -106,42 +97,11 @@ pub struct MtbCarePlan { pub struct GeneticCounselingRecommendation { pub id: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, + pub issued_on: String, - pub patient: Patient, + pub patient: Reference, - pub reason: Coding, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct Patient { - pub id: String, - - #[serde(rename = "type")] - pub patient_type: PatientType, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum PatientType { - Patient, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct Coding { - pub code: String, - - #[serde(skip_serializing_if = "Option::is_none")] - pub display: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub version: Option, + pub reason: CodingGeneticCounselingRecommendationReason, } #[derive(Debug, Serialize, Deserialize)] @@ -155,36 +115,122 @@ pub struct Reference { #[serde(rename = "type")] #[serde(skip_serializing_if = "Option::is_none")] pub reference_type: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingGeneticCounselingRecommendationReason { + pub code: ReasonCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum ReasonCode { + #[serde(rename = "family-anamnesis")] + FamilyAnamnesis, + + Other, + + #[serde(rename = "secondary-tumor")] + SecondaryTumor, + + #[serde(rename = "self-anamnesis")] + SelfAnamnesis, + + Unknown, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct HistologyReevaluationRequest { + pub id: String, + + pub issued_on: String, + + pub patient: Reference, + + pub specimen: Reference, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct MtbMedicationRecommendation { + #[serde(skip_serializing_if = "Option::is_none")] + pub category: Option, + pub id: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub indication: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, + pub issued_on: String, #[serde(skip_serializing_if = "Option::is_none")] pub level_of_evidence: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub medication: Option>, + pub medication: Vec, + + pub patient: Reference, + + pub priority: CodingRecommendationPriority, #[serde(skip_serializing_if = "Option::is_none")] - pub ngs_report: Option, - - pub patient: Patient, + pub reason: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub priority: Option, + pub supporting_variants: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub supporting_variants: Option>, + pub use_type: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbMedicationRecommendationCategory { + pub code: CodingMtbMedicationRecommendationCategoryCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum CodingMtbMedicationRecommendationCategoryCode { + #[serde(rename = "CH")] + Ch, + + #[serde(rename = "HO")] + Ho, + + #[serde(rename = "IM")] + Im, + + #[serde(rename = "SO")] + So, + + #[serde(rename = "SZ")] + Sz, + + #[serde(rename = "ZS")] + Zs, } #[derive(Debug, Serialize, Deserialize)] @@ -196,7 +242,7 @@ pub struct LevelOfEvidence { pub grading: CodingLevelOfEvidenceGrading, #[serde(skip_serializing_if = "Option::is_none")] - pub publications: Option>, + pub publications: Option>, } #[derive(Debug, Serialize, Deserialize)] @@ -231,7 +277,7 @@ pub enum AddendumCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingLevelOfEvidenceGrading { - pub code: GradingCode, + pub code: LevelOfEvidenceCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -246,7 +292,7 @@ pub struct CodingLevelOfEvidenceGrading { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub enum GradingCode { +pub enum LevelOfEvidenceCode { #[serde(rename = "m1A")] M1A, @@ -274,78 +320,99 @@ pub enum GradingCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] -pub struct ReferencePublication { +pub struct PublicationReference { #[serde(skip_serializing_if = "Option::is_none")] - pub ext_id: Option, + pub display: Option, + + pub id: String, #[serde(rename = "type")] #[serde(skip_serializing_if = "Option::is_none")] - pub reference_publication_type: Option, + pub publication_reference_type: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub uri: Option, + pub system: PublicationSystem, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct ExtId { - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, - - pub value: String, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum ExtIdSystem { - #[serde(rename = "https://pubmed.ncbi.nlm.nih.gov/")] +pub enum PublicationSystem { + #[serde(rename = "https://pubmed.ncbi.nlm.nih.gov")] HttpsPubmedNcbiNlmNihGov, + + #[serde(rename = "https://www.doi.org")] + HttpsWwwDoiOrg, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTherapyRecommendationPriority { - pub code: TherapyRecommendationPriority, +pub struct CodingAtcUnregisteredMedication { + pub code: String, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + pub system: RequestedMedicationSystem, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum RequestedMedicationSystem { + #[serde(rename = "http://fhir.de/CodeSystem/bfarm/atc")] + HttpFhirDeCodeSystemBfarmAtc, + + Undefined, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingRecommendationPriority { + pub code: PriorityCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum TherapyRecommendationPriority { - #[serde(rename = "1")] - Prio1, - - #[serde(rename = "2")] - Prio2, - - #[serde(rename = "3")] - Prio3, - - #[serde(rename = "4")] - Prio4, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] -pub struct NoTargetFinding { - pub diagnosis: String, #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, - - pub patient: Patient, + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingCarePlanStatusReason { +pub enum PriorityCode { + #[serde(rename = "1")] + The1, + + #[serde(rename = "2")] + The2, + + #[serde(rename = "3")] + The3, + + #[serde(rename = "4")] + The4, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct GeneAlterationReference { + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub gene: Option, + + pub variant: Reference, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct Coding { pub code: String, #[serde(skip_serializing_if = "Option::is_none")] @@ -353,49 +420,222 @@ pub struct CodingCarePlanStatusReason { #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbMedicationRecommendationUseType { + pub code: UseTypeCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum UseTypeCode { + Compassionate, + + #[serde(rename = "in-label")] + InLabel, + + #[serde(rename = "off-label")] + OffLabel, + + #[serde(rename = "sec-preventive")] + SecPreventive, + + Unknown, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct StudyEnrollmentRecommendation { +pub struct ProcedureRecommendation { + pub code: CodingMtbProcedureRecommendationCategory, + pub id: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, + pub issued_on: String, #[serde(skip_serializing_if = "Option::is_none")] - pub level_of_evidence: Option, + pub level_of_evidence: Option, - pub patient: Patient, + pub patient: Reference, - pub reason: Reference, - - pub studies: Vec, + pub priority: CodingRecommendationPriority, #[serde(skip_serializing_if = "Option::is_none")] - pub supporting_variants: Option>, + pub reason: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub supporting_variants: Option>, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct Study { - pub system: String, +pub struct CodingMtbProcedureRecommendationCategory { + pub code: CodingMtbProcedureRecommendationCategoryCode, - pub value: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum CodingMtbProcedureRecommendationCategoryCode { + #[serde(rename = "AS")] + As, + + #[serde(rename = "OP")] + Op, + + #[serde(rename = "SO")] + So, + + #[serde(rename = "ST")] + St, + + #[serde(rename = "WS")] + Ws, + + #[serde(rename = "WW")] + Ww, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct RebiopsyRequest { + pub id: String, + + pub issued_on: String, + + pub patient: Reference, + + pub tumor_entity: Reference, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbCarePlanStatusReason { + pub code: CodingMtbCarePlanStatusReasonCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum CodingMtbCarePlanStatusReasonCode { + #[serde(rename = "no-target")] + NoTarget, + + #[serde(rename = "non-genetic-cause")] + NonGeneticCause, + + #[serde(rename = "not-rare-disease")] + NotRareDisease, + + Other, + + Psychosomatic, + + #[serde(rename = "targeted-diagnostics-recommended")] + TargetedDiagnosticsRecommended, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct MtbStudyEnrollmentRecommendation { + pub id: String, + + pub issued_on: String, + + #[serde(skip_serializing_if = "Option::is_none")] + pub level_of_evidence: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub medication: Option>, + + pub patient: Reference, + + pub priority: CodingRecommendationPriority, + + pub reason: Reference, + + pub study: Vec, + + #[serde(skip_serializing_if = "Option::is_none")] + pub supporting_variants: Option>, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct StudyReference { + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + pub id: String, + + #[serde(rename = "type")] + #[serde(skip_serializing_if = "Option::is_none")] + pub study_reference_type: Option, + + pub system: StudySystem, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum StudySystem { + #[serde(rename = "DRKS")] + Drks, + + #[serde(rename = "EUDAMED")] + Eudamed, + + #[serde(rename = "Eudra-CT")] + EudraCt, + + #[serde(rename = "NCT")] + Nct, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct ClaimResponse { - pub claim: ClaimResponseClaim, + pub claim: Reference, pub id: String, pub issued_on: String, - pub patient: Patient, + pub patient: Reference, pub status: CodingClaimResponseStatus, @@ -403,39 +643,25 @@ pub struct ClaimResponse { pub status_reason: Option, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct ClaimResponseClaim { - #[serde(rename = "type")] - #[serde(skip_serializing_if = "Option::is_none")] - pub claim_response_claim_type: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub id: Option, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum ClaimResponseClaimType { - Claim, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingClaimResponseStatus { - pub code: ClaimResponseStatus, + pub code: CodingClaimResponseStatusCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum ClaimResponseStatus { +pub enum CodingClaimResponseStatusCode { Accepted, Rejected, @@ -446,19 +672,22 @@ pub enum ClaimResponseStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingClaimResponseStatusReason { - pub code: ClaimResponseStatusReason, + pub code: CodingClaimResponseStatusReasonCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum ClaimResponseStatusReason { +pub enum CodingClaimResponseStatusReasonCode { #[serde(rename = "approval-revocation")] ApprovalRevocation, @@ -490,73 +719,20 @@ pub struct Claim { pub issued_on: String, - pub patient: Patient, + pub patient: Reference, + + pub recommendation: Reference, #[serde(skip_serializing_if = "Option::is_none")] - pub recommendation: Option, + pub requested_medication: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub stage: Option, + pub stage: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct Recommendation { - pub id: String, - - #[serde(rename = "type")] - pub recommendation_type: String, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] -pub struct MtbDiagnosis { - pub code: Coding, - - #[serde(skip_serializing_if = "Option::is_none")] - pub guideline_treatment_status: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub histology_results: Option>, - - #[serde(skip_serializing_if = "Option::is_none")] - pub icd_o3_t: Option, - - pub id: String, - - pub patient: Patient, - - #[serde(skip_serializing_if = "Option::is_none")] - pub recorded_on: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub stage_history: Option>, - - #[serde(skip_serializing_if = "Option::is_none")] - pub topography: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub tumor_grade: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub who_grade: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub who_grading: Option, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct StageHistory { - pub date: String, - - pub stage: CodingTumorSpread, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingTumorSpread { +pub struct CodingClaimStage { pub code: StageCode, #[serde(skip_serializing_if = "Option::is_none")] @@ -564,32 +740,6 @@ pub struct CodingTumorSpread { #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -#[serde(rename_all = "kebab-case")] -pub enum StageCode { - Local, - - Metastasized, - - #[serde(rename = "tumor-free")] - TumorFree, - - Unknown, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingTumorGrade { - pub code: TumorGradeCode, - - #[serde(skip_serializing_if = "Option::is_none")] - pub display: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, #[serde(skip_serializing_if = "Option::is_none")] pub version: Option, @@ -597,32 +747,214 @@ pub struct CodingTumorGrade { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum TumorGradeCode { - G1, +#[serde(rename_all = "kebab-case")] +pub enum StageCode { + #[serde(rename = "follow-up-claim")] + FollowUpClaim, - G2, + #[serde(rename = "initial-claim")] + InitialClaim, - G3, + Revocation, - G4, - - #[serde(rename = "GX")] - Gx, + Unknown, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct MtbEpisode { +#[serde(rename_all = "camelCase")] +pub struct MtbDiagnosis { + pub code: Coding, + + #[serde(skip_serializing_if = "Option::is_none")] + pub germline_codes: Option>, + + #[serde(skip_serializing_if = "Option::is_none")] + pub grading: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub guideline_treatment_status: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub histology: Option>, + pub id: String, - pub patient: Patient, + #[serde(rename = "type")] + pub mtb_diagnosis_type: Type, - pub period: PeriodLocalDate, + #[serde(skip_serializing_if = "Option::is_none")] + pub notes: Option>, + + pub patient: Reference, + + #[serde(skip_serializing_if = "Option::is_none")] + pub recorded_on: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub staging: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub topography: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct PeriodLocalDate { +pub struct Grading { + pub history: Vec, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct TumorGrading { + pub codes: Vec, + + pub date: String, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbDiagnosisGuidelineTreatmentStatus { + pub code: GuidelineTreatmentStatusCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum GuidelineTreatmentStatusCode { + Exhausted, + + Impossible, + + #[serde(rename = "no-guidelines-available")] + NoGuidelinesAvailable, + + #[serde(rename = "non-exhausted")] + NonExhausted, + + Unknown, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct Type { + pub history: Vec, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct History { + pub date: String, + + pub value: CodingMtbDiagnosis, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbDiagnosis { + pub code: CodingMtbDiagnosisCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum CodingMtbDiagnosisCode { + Main, + + Metachronous, + + Secondary, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct Staging { + pub history: Vec, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct TumorStaging { + pub date: String, + + pub method: CodingTumorStagingMethod, + + #[serde(skip_serializing_if = "Option::is_none")] + pub other_classifications: Option>, + + #[serde(skip_serializing_if = "Option::is_none")] + pub tnm_classification: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingTumorStagingMethod { + pub code: CodingTumorStagingMethodCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum CodingTumorStagingMethodCode { + Clinical, + + Pathologic, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct TnmClassification { + pub metastasis: Coding, + + pub nodes: Coding, + + pub tumor: Coding, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct MtbEpisodeOfCare { + #[serde(skip_serializing_if = "Option::is_none")] + pub diagnoses: Option>, + + pub id: String, + + pub patient: Reference, + + pub period: PeriodDate, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct PeriodDate { #[serde(skip_serializing_if = "Option::is_none")] pub end: Option, @@ -631,51 +963,68 @@ pub struct PeriodLocalDate { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct EpisodeOfCare { +#[serde(rename_all = "camelCase")] +pub struct FollowUp { + pub date: String, + #[serde(skip_serializing_if = "Option::is_none")] - pub diagnoses: Option>, + pub patient_status: Option, +} - pub id: String, +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingFollowUpPatientStatus { + pub code: PatientStatusCode, - pub patient: Reference, + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, - pub period: PeriodLocalDate, + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum PatientStatusCode { + #[serde(rename = "lost-to-fu")] + LostToFu, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct OncoProdecure { +pub struct OncoProcedure { #[serde(skip_serializing_if = "Option::is_none")] - pub based_on: Option, + pub based_on: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub code: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub diagnosis: Option, + pub code: CodingOncoProcedure, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub indication: Option, + pub intent: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub notes: Option, + pub notes: Option>, - pub patient: Patient, + pub patient: Reference, #[serde(skip_serializing_if = "Option::is_none")] - pub period: Option, + pub period: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub recorded_on: Option, + pub reason: Option, + + pub recorded_on: String, + + pub status: CodingTherapyStatus, #[serde(skip_serializing_if = "Option::is_none")] - pub status: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub status_reason: Option, #[serde(skip_serializing_if = "Option::is_none")] pub therapy_line: Option, @@ -683,20 +1032,78 @@ pub struct OncoProdecure { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTherapyStatus { - pub code: TherapyStatus, +pub struct CodingOncoProcedure { + pub code: CodingOncoProcedureCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum TherapyStatus { +pub enum CodingOncoProcedureCode { + #[serde(rename = "nuclear-medicine")] + NuclearMedicine, + + #[serde(rename = "radio-therapy")] + RadioTherapy, + + Surgery, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbTherapyIntent { + pub code: IntentCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum IntentCode { + K, + + P, + + S, + + X, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingTherapyStatus { + pub code: CodingTherapyStatusCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum CodingTherapyStatusCode { Completed, #[serde(rename = "not-done")] @@ -712,8 +1119,8 @@ pub enum TherapyStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTherapyStatusReason { - pub code: StatusReasonCode, +pub struct CodingMtbTherapyStatusReason { + pub code: CodingMtbTherapyStatusReasonCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -728,20 +1135,20 @@ pub struct CodingTherapyStatusReason { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum StatusReasonCode { +pub enum CodingMtbTherapyStatusReasonCode { + #[serde(rename = "best-supportive-care")] + BestSupportiveCare, + #[serde(rename = "chronic-remission")] ChronicRemission, - #[serde(rename = "continued-externally")] - ContinuedExternally, - Deterioration, #[serde(rename = "lost-to-fu")] LostToFu, - #[serde(rename = "medical-reason")] - MedicalReason, + #[serde(rename = "medical-reasons")] + MedicalReasons, #[serde(rename = "no-indication")] NoIndication, @@ -771,50 +1178,114 @@ pub enum StatusReasonCode { Progression, - Toxicity, + #[serde(rename = "regular-completion")] + RegularCompletion, - Unknown, + #[serde(rename = "regular-completion-with-dosage-reduction")] + RegularCompletionWithDosageReduction, + + #[serde(rename = "regular-completion-with-substance-change")] + RegularCompletionWithSubstanceChange, + + Toxicity, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct MtbMedicationTherapy { +pub struct MtbSystemicTherapy { #[serde(skip_serializing_if = "Option::is_none")] pub based_on: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub diagnosis: Option, + pub category: Option, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub indication: Option, + pub intent: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub medication: Option>, + pub medication: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub notes: Option, + pub notes: Option>, - pub patient: Patient, + pub patient: Reference, #[serde(skip_serializing_if = "Option::is_none")] - pub period: Option, + pub period: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub recorded_on: Option, + pub reason: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub status: Option, + pub recommendation_fulfillment_status: Option, + + pub recorded_on: String, + + pub status: CodingTherapyStatus, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub status_reason: Option, #[serde(skip_serializing_if = "Option::is_none")] pub therapy_line: Option, } +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbSystemicTherapyCategory { + pub code: CodingMtbSystemicTherapyCategoryCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum CodingMtbSystemicTherapyCategoryCode { + A, + + I, + + N, + + O, + + S, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMtbSystemicTherapyRecommendationFulfillmentStatus { + pub code: RecommendationFulfillmentStatusCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum RecommendationFulfillmentStatusCode { + Complete, + + Partial, +} + #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] @@ -823,18 +1294,19 @@ pub struct HistologyReport { pub issued_on: String, - pub patient: Patient, + pub patient: Reference, pub results: HistologyReportResults, - pub specimen: HistologyReportSpecimen, + pub specimen: Reference, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct HistologyReportResults { - pub tumor_cell_content: TumorCellContent, + #[serde(skip_serializing_if = "Option::is_none")] + pub tumor_cell_content: Option, pub tumor_morphology: TumorMorphology, } @@ -846,10 +1318,9 @@ pub struct TumorCellContent { pub method: CodingTumorCellContentMethod, - #[serde(skip_serializing_if = "Option::is_none")] - pub patient: Option, + pub patient: Reference, - pub specimen: TumorCellContentSpecimen, + pub specimen: Reference, pub value: f64, } @@ -857,40 +1328,27 @@ pub struct TumorCellContent { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingTumorCellContentMethod { - pub code: TumorCellContentMethod, + pub code: CodingTumorCellContentMethodCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum TumorCellContentMethod { +pub enum CodingTumorCellContentMethodCode { Bioinformatic, Histologic, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct TumorCellContentSpecimen { - pub id: String, - - #[serde(rename = "type")] - pub specimen_type: SpecimenType, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum SpecimenType { - #[serde(rename = "TumorSpecimen")] - TumorSpecimen, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct TumorMorphology { @@ -899,65 +1357,45 @@ pub struct TumorMorphology { #[serde(skip_serializing_if = "Option::is_none")] pub notes: Option, - pub patient: Patient, + pub patient: Reference, - pub specimen: TumorMorphologySpecimen, + pub specimen: Reference, pub value: Coding, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct TumorMorphologySpecimen { - pub id: String, - - #[serde(rename = "type")] - pub specimen_type: SpecimenType, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct HistologyReportSpecimen { - pub id: String, - - #[serde(rename = "type")] - pub specimen_type: SpecimenType, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct IhcReport { - pub block_id: ExternalId, - - pub date: String, + pub block_ids: Vec, pub id: String, - pub journal_id: ExternalId, + pub issued_on: String, - pub msi_mmr_results: Vec, + pub journal_id: String, pub patient: Reference, - pub protein_expression_results: Vec, + pub results: IhcReportResults, pub specimen: Reference, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct ExternalId { - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, +#[serde(rename_all = "camelCase")] +pub struct IhcReportResults { + pub msi_mmr: Vec, - pub value: String, + pub protein_expression: Vec, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct MsiMmrResult { +pub struct MsiMmr { #[serde(skip_serializing_if = "Option::is_none")] pub ic_score: Option, @@ -995,16 +1433,16 @@ pub struct CodingProteinExpressionIcScore { #[serde(deny_unknown_fields)] pub enum IcScoreCode { #[serde(rename = "0")] - Code0, + The0, #[serde(rename = "1")] - Code1, + The1, #[serde(rename = "2")] - Code2, + The2, #[serde(rename = "3")] - Code3, + The3, } #[derive(Debug, Serialize, Deserialize)] @@ -1026,25 +1464,25 @@ pub struct CodingProteinExpressionTcScore { #[serde(deny_unknown_fields)] pub enum TcScoreCode { #[serde(rename = "0")] - Code0, + The0, #[serde(rename = "1")] - Code1, + The1, #[serde(rename = "2")] - Code2, + The2, #[serde(rename = "3")] - Code3, + The3, #[serde(rename = "4")] - Code4, + The4, #[serde(rename = "5")] - Code5, + The5, #[serde(rename = "6")] - Code6, + The6, } #[derive(Debug, Serialize, Deserialize)] @@ -1072,13 +1510,13 @@ pub enum ProteinExpressionResultCode { NotExp, #[serde(rename = "1+")] - Code1Plus, + The1, #[serde(rename = "2+")] - Code2Plus, + The2, #[serde(rename = "3+")] - Code3Plus, + The3, Unknown, } @@ -1086,7 +1524,7 @@ pub enum ProteinExpressionResultCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct ProteinExpressionResult { +pub struct ProteinExpression { #[serde(skip_serializing_if = "Option::is_none")] pub ic_score: Option, @@ -1105,40 +1543,30 @@ pub struct ProteinExpressionResult { pub value: CodingProteinExpressionResult, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct MolecularTherapy { - pub history: Vec, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct SomaticNgsReport { +pub struct SomaticNgsReportMetadata { pub id: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub issued_on: Option, + pub issued_on: String, - pub metadata: Vec, + pub metadata: Vec, - #[serde(skip_serializing_if = "Option::is_none")] - pub msi: Option, + pub patient: Reference, - pub patient: Patient, + pub results: NgsReportResults, - #[serde(skip_serializing_if = "Option::is_none")] - pub results: Option, + #[serde(rename = "type")] + pub somatic_ngs_report_metadata_type: CodingNgsReport, - pub sequencing_type: Coding, - - pub specimen: NgsReportSpecimen, + pub specimen: Reference, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct Metadatum { +pub struct Metadata { pub kit_manufacturer: String, pub kit_type: String, @@ -1157,23 +1585,18 @@ pub struct NgsReportResults { #[serde(skip_serializing_if = "Option::is_none")] pub brcaness: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub copy_number_variants: Option>, + pub copy_number_variants: Vec, - #[serde(skip_serializing_if = "Option::is_none")] - pub dna_fusions: Option>, + pub dna_fusions: Vec, #[serde(skip_serializing_if = "Option::is_none")] pub hrd_score: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub rna_fusions: Option>, + pub rna_fusions: Vec, - #[serde(skip_serializing_if = "Option::is_none")] - pub rna_seqs: Option>, + pub rna_seqs: Vec, - #[serde(skip_serializing_if = "Option::is_none")] - pub simple_variants: Option>, + pub simple_variants: Vec, #[serde(skip_serializing_if = "Option::is_none")] pub tmb: Option, @@ -1209,7 +1632,7 @@ pub struct ConfidenceRange { #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct Cnv { - pub chromosome: CodingChromosome, + pub chromosome: Chromosome, #[serde(skip_serializing_if = "Option::is_none")] pub cn_a: Option, @@ -1218,52 +1641,44 @@ pub struct Cnv { pub cn_b: Option, #[serde(rename = "type")] - pub cnv_type: CodingCnvType, + pub cnv_type: CodingCnv, #[serde(skip_serializing_if = "Option::is_none")] - pub copy_number_neutral_lo_h: Option>, + pub copy_number_neutral_lo_h: Option>, - pub end_range: EndRange, + #[serde(skip_serializing_if = "Option::is_none")] + pub end_range: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub external_ids: Option>, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub indication: Option, + pub localization: Option>, - #[serde(skip_serializing_if = "Option::is_none")] - pub patient: Option, + pub patient: Reference, #[serde(skip_serializing_if = "Option::is_none")] pub relative_copy_number: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub reported_affected_genes: Option>, + pub reported_affected_genes: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub reported_focality: Option, - pub start_range: StartRange, + #[serde(skip_serializing_if = "Option::is_none")] + pub start_range: Option, #[serde(skip_serializing_if = "Option::is_none")] pub total_copy_number: Option, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingChromosome { - pub code: ChromosomeCode, - - #[serde(skip_serializing_if = "Option::is_none")] - pub display: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub enum ChromosomeCode { +pub enum Chromosome { Chr1, Chr10, @@ -1317,27 +1732,23 @@ pub enum ChromosomeCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -#[serde(rename_all = "snake_case")] -pub enum ChromosomeSystem { - Chromosome, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingCnvType { - pub code: CnvType, +pub struct CodingCnv { + pub code: CodingCnvCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CnvType { +pub enum CodingCnvCode { #[serde(rename = "high-level-gain")] HighLevelGain, @@ -1347,25 +1758,6 @@ pub enum CnvType { LowLevelGain, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingGene { - pub code: String, - - #[serde(skip_serializing_if = "Option::is_none")] - pub display: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub system: Option, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum GeneSystem { - #[serde(rename = "https://www.genenames.org/")] - HttpsWwwGenenamesOrg, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct EndRange { @@ -1375,6 +1767,63 @@ pub struct EndRange { pub start: f64, } +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct VariantExternalId { + pub system: ExternalIdSystem, + + pub value: String, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum ExternalIdSystem { + #[serde(rename = "https://cancer.sanger.ac.uk/cosmic")] + HttpsCancerSangerAcUkCosmic, + + #[serde(rename = "https://www.ensembl.org")] + HttpsWwwEnsemblOrg, + + #[serde(rename = "https://www.ncbi.nlm.nih.gov/entrez")] + HttpsWwwNcbiNlmNihGovEntrez, + + #[serde(rename = "https://www.ncbi.nlm.nih.gov/snp")] + HttpsWwwNcbiNlmNihGovSnp, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingBaseVariantLocalization { + pub code: CodingBaseVariantLocalizationCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum CodingBaseVariantLocalizationCode { + #[serde(rename = "coding-region")] + CodingRegion, + + Intergenic, + + Intronic, + + #[serde(rename = "regulatory-region")] + RegulatoryRegion, + + #[serde(rename = "splicing-region")] + SplicingRegion, +} + #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct StartRange { @@ -1388,6 +1837,9 @@ pub struct StartRange { #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct DnaFusion { + #[serde(skip_serializing_if = "Option::is_none")] + pub external_ids: Option>, + #[serde(rename = "fusionPartner3prime")] pub fusion_partner3_prime: DnaFusionFusionPartner3Prime, @@ -1396,15 +1848,20 @@ pub struct DnaFusion { pub id: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub localization: Option>, + + pub patient: Reference, + pub reported_num_reads: i64, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct DnaFusionFusionPartner3Prime { - pub chromosome: CodingChromosome, + pub chromosome: Chromosome, - pub gene: CodingGene, + pub gene: Coding, pub position: f64, } @@ -1412,24 +1869,13 @@ pub struct DnaFusionFusionPartner3Prime { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct DnaFusionFusionPartner5Prime { - pub chromosome: CodingChromosome, + pub chromosome: Chromosome, - pub gene: Gene, + pub gene: Coding, pub position: f64, } -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] -pub struct Gene { - #[serde(skip_serializing_if = "Option::is_none")] - pub ensembl_id: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub hgnc_id: Option, -} - #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct HrdScore { @@ -1438,7 +1884,7 @@ pub struct HrdScore { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, pub patient: Reference, @@ -1457,15 +1903,41 @@ pub struct Components { pub tai: f64, } +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingHrdScoreInterpretation { + pub code: CodingHrdScoreInterpretationCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum CodingHrdScoreInterpretationCode { + High, + + Intermediate, + + Low, +} + #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct RnaFusion { #[serde(skip_serializing_if = "Option::is_none")] - pub cosmic_id: Option, + pub effect: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub effect: Option, + pub external_ids: Option>, #[serde(rename = "fusionPartner3prime")] pub fusion_partner3_prime: RnaFusionFusionPartner3Prime, @@ -1475,6 +1947,11 @@ pub struct RnaFusion { pub id: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub localization: Option>, + + pub patient: Reference, + pub reported_num_reads: i64, } @@ -1482,15 +1959,15 @@ pub struct RnaFusion { #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct RnaFusionFusionPartner3Prime { - pub exon: String, + pub exon_id: String, - pub gene: CodingGene, + pub gene: Coding, pub position: f64, pub strand: RnaFusionStrand, - pub transcript_id: String, + pub transcript_id: TranscriptId, } #[derive(Debug, Serialize, Deserialize)] @@ -1503,19 +1980,37 @@ pub enum RnaFusionStrand { RnaFusionStrand, } +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct TranscriptId { + pub system: TranscriptIdSystem, + + pub value: String, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum TranscriptIdSystem { + #[serde(rename = "https://www.ensembl.org")] + HttpsWwwEnsemblOrg, + + #[serde(rename = "https://www.ncbi.nlm.nih.gov/refseq")] + HttpsWwwNcbiNlmNihGovRefseq, +} + #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] pub struct RnaFusionFusionPartner5Prime { - pub exon: String, + pub exon_id: String, - pub gene: CodingGene, + pub gene: Coding, pub position: f64, pub strand: RnaFusionStrand, - pub transcript_id: String, + pub transcript_id: TranscriptId, } #[derive(Debug, Serialize, Deserialize)] @@ -1525,26 +2020,33 @@ pub struct RnaSeq { #[serde(skip_serializing_if = "Option::is_none")] pub cohort_ranking: Option, - pub ensembl_id: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub external_ids: Option>, - pub entrez_id: String, - - pub fragments_per_kilobase_million: f64, - - #[serde(rename = "fromNGS")] - pub from_ngs: bool, - - pub gene: CodingGene, + #[serde(skip_serializing_if = "Option::is_none")] + pub gene: Option, pub id: String, - pub library_size: i64, + #[serde(skip_serializing_if = "Option::is_none")] + pub library_size: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub localization: Option>, + + pub patient: Reference, pub raw_counts: i64, - pub tissue_corrected_expression: bool, + #[serde(skip_serializing_if = "Option::is_none")] + pub tissue_corrected_expression: Option, - pub transcript_id: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub transcript_id: Option, + + pub transcripts_per_million: f64, + + pub variant: Reference, } #[derive(Debug, Serialize, Deserialize)] @@ -1555,33 +2057,29 @@ pub struct Snv { pub alt_allele: String, - #[serde(skip_serializing_if = "Option::is_none")] - pub amino_acid_change: Option, - - pub chromosome: CodingChromosome, - - #[serde(skip_serializing_if = "Option::is_none")] - pub cosmic_id: Option, - - #[serde(rename = "dbSNPId")] - #[serde(skip_serializing_if = "Option::is_none")] - pub db_snp_id: Option, + pub chromosome: Chromosome, #[serde(skip_serializing_if = "Option::is_none")] pub dna_change: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub external_ids: Option>, + pub exon_id: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub gene: Option, + pub external_ids: Option>, + + #[serde(skip_serializing_if = "Option::is_none")] + pub gene: Option, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, - pub patient: Patient, + #[serde(skip_serializing_if = "Option::is_none")] + pub localization: Option>, + + pub patient: Reference, pub position: Position, @@ -1592,8 +2090,41 @@ pub struct Snv { pub ref_allele: String, + pub transcript_id: TranscriptId, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingClinVar { + pub code: CodingClinVarCode, + #[serde(skip_serializing_if = "Option::is_none")] - pub transcript_id: Option, + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum CodingClinVarCode { + #[serde(rename = "1")] + The1, + + #[serde(rename = "2")] + The2, + + #[serde(rename = "3")] + The3, + + #[serde(rename = "4")] + The4, + + #[serde(rename = "5")] + The5, } #[derive(Debug, Serialize, Deserialize)] @@ -1611,41 +2142,85 @@ pub struct Tmb { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, pub patient: Reference, pub specimen: Reference, - pub value: Value, + pub value: TmbResult, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct Value { - pub unit: String, +pub struct CodingTmbInterpretation { + pub code: CodingHrdScoreInterpretationCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct TmbResult { + #[serde(skip_serializing_if = "Option::is_none")] + pub unit: Option, pub value: f64, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct NgsReportSpecimen { - pub id: String, +pub struct CodingNgsReport { + pub code: CodingNgsReportCode, - #[serde(rename = "type")] - pub specimen_type: SpecimenType, + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum CodingNgsReportCode { + Array, + + Exome, + + #[serde(rename = "genome-long-read")] + GenomeLongRead, + + #[serde(rename = "genome-short-read")] + GenomeShortRead, + + Karyotyping, + + Other, + + Panel, + + Single, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct MtbPatient { - #[serde(skip_serializing_if = "Option::is_none")] - pub address: Option
, +pub struct Patient { + pub address: Address, #[serde(skip_serializing_if = "Option::is_none")] - pub age: Option, + pub age: Option, pub birth_date: String, @@ -1654,13 +2229,15 @@ pub struct MtbPatient { pub gender: CodingGender, - #[serde(skip_serializing_if = "Option::is_none")] - pub health_insurance: Option, + pub health_insurance: HealthInsurance, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub vital_status: Option, + pub managing_site: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub vital_status: Option, } #[derive(Debug, Serialize, Deserialize)] @@ -1672,7 +2249,7 @@ pub struct Address { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct ValueWithUnit { +pub struct Age { pub unit: Unit, pub value: f64, @@ -1681,13 +2258,15 @@ pub struct ValueWithUnit { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub enum Unit { + Months, + Years, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingGender { - pub code: Gender, + pub code: GenderCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1702,7 +2281,7 @@ pub struct CodingGender { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum Gender { +pub enum GenderCode { Female, Male, @@ -1714,27 +2293,63 @@ pub enum Gender { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] pub struct HealthInsurance { + #[serde(rename = "type")] + pub health_insurance_type: CodingHealthInsurance, + + #[serde(skip_serializing_if = "Option::is_none")] + pub reference: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingHealthInsurance { + pub code: CodingHealthInsuranceCode, + #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, - pub ext_id: ExternalId, - - #[serde(rename = "type")] #[serde(skip_serializing_if = "Option::is_none")] - pub health_insurance_type: Option, + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum Type { - Organization, +pub enum CodingHealthInsuranceCode { + #[serde(rename = "BEI")] + Bei, + + #[serde(rename = "BG")] + Bg, + + #[serde(rename = "GKV")] + Gkv, + + #[serde(rename = "GPV")] + Gpv, + + #[serde(rename = "PKV")] + Pkv, + + #[serde(rename = "PPV")] + Ppv, + + #[serde(rename = "SEL")] + Sel, + + #[serde(rename = "SOZ")] + Soz, + + #[serde(rename = "UNK")] + Unk, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct VitalStatus { +pub struct CodingVitalStatus { pub code: VitalStatusCode, #[serde(skip_serializing_if = "Option::is_none")] @@ -1742,6 +2357,9 @@ pub struct VitalStatus { #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] @@ -1761,7 +2379,7 @@ pub struct PerformanceStatus { pub id: String, - pub patient: Patient, + pub patient: Reference, pub value: CodingEcog, } @@ -1769,7 +2387,7 @@ pub struct PerformanceStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingEcog { - pub code: EcogCode, + pub code: CodingEcogCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1783,21 +2401,96 @@ pub struct CodingEcog { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum EcogCode { +pub enum CodingEcogCode { #[serde(rename = "0")] - Code0, + The0, #[serde(rename = "1")] - Code1, + The1, #[serde(rename = "2")] - Code2, + The2, #[serde(rename = "3")] - Code3, + The3, #[serde(rename = "4")] - Code4, + The4, + + #[serde(rename = "5")] + The5, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct PriorDiagnosticReport { + pub id: String, + + pub issued_on: String, + + pub patient: Reference, + + #[serde(skip_serializing_if = "Option::is_none")] + pub performer: Option, + + #[serde(rename = "type")] + pub prior_diagnostic_report_type: CodingMolecularDiagnosticReport, + + #[serde(skip_serializing_if = "Option::is_none")] + pub results: Option>, + + pub specimen: Reference, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingMolecularDiagnosticReport { + pub code: CodingMolecularDiagnosticReportCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum CodingMolecularDiagnosticReportCode { + Array, + + Exome, + + #[serde(rename = "FISH")] + Fish, + + #[serde(rename = "fusion-panel")] + FusionPanel, + + #[serde(rename = "gene-panel")] + GenePanel, + + #[serde(rename = "genome-long-read")] + GenomeLongRead, + + #[serde(rename = "genome-short-read")] + GenomeShortRead, + + Karyotyping, + + Other, + + Panel, + + #[serde(rename = "PCR")] + Pcr, + + Single, } #[derive(Debug, Serialize, Deserialize)] @@ -1808,33 +2501,19 @@ pub struct Response { pub id: String, - pub patient: Patient, + pub method: CodingResponseMethod, - pub therapy: ResponseTherapy, + pub patient: Reference, + + pub therapy: Reference, pub value: CodingRecist, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct ResponseTherapy { - pub id: String, - - #[serde(rename = "type")] - pub response_therapy_type: ResponseTherapyType, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub enum ResponseTherapyType { - #[serde(rename = "MTBMedicationTherapy")] - MtbMedicationTherapy, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingRecist { - pub code: RecistCode, +pub struct CodingResponseMethod { + pub code: CodingResponseMethodCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1848,7 +2527,32 @@ pub struct CodingRecist { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum RecistCode { +pub enum CodingResponseMethodCode { + #[serde(rename = "RANO")] + Rano, + + #[serde(rename = "RECIST")] + Recist, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct CodingRecist { + pub code: CodingRecistCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum CodingRecistCode { #[serde(rename = "CR")] Cr, @@ -1858,9 +2562,6 @@ pub enum RecistCode { #[serde(rename = "NA")] Na, - #[serde(rename = "NYA")] - Nya, - #[serde(rename = "PD")] Pd, @@ -1877,22 +2578,21 @@ pub struct TumorSpecimen { #[serde(skip_serializing_if = "Option::is_none")] pub collection: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub diagnosis: Option, + pub diagnosis: Reference, pub id: String, - pub patient: Patient, + pub patient: Reference, #[serde(rename = "type")] - #[serde(skip_serializing_if = "Option::is_none")] - pub tumor_specimen_type: Option, + pub tumor_specimen_type: CodingTumorSpecimen, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct Collection { - pub date: String, + #[serde(skip_serializing_if = "Option::is_none")] + pub date: Option, pub localization: CodingTumorSpecimenCollectionLocalization, @@ -1902,43 +2602,58 @@ pub struct Collection { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingTumorSpecimenCollectionLocalization { - pub code: TumorSpecimenCollectionLocalization, + pub code: CodingTumorSpecimenCollectionLocalizationCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum TumorSpecimenCollectionLocalization { +pub enum CodingTumorSpecimenCollectionLocalizationCode { + #[serde(rename = "cellfree-dna")] + CellfreeDna, + + #[serde(rename = "local-recurrence")] + LocalRecurrence, + Metastasis, #[serde(rename = "primary-tumor")] PrimaryTumor, + #[serde(rename = "regional-lymph-nodes")] + RegionalLymphNodes, + Unknown, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] pub struct CodingTumorSpecimenCollectionMethod { - pub code: TumorSpecimenCollectionMethod, + pub code: CodingTumorSpecimenCollectionMethodCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum TumorSpecimenCollectionMethod { +pub enum CodingTumorSpecimenCollectionMethodCode { Biopsy, Cytology, @@ -1953,29 +2668,23 @@ pub enum TumorSpecimenCollectionMethod { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct Diagnosis { - #[serde(rename = "type")] - pub diagnosis_type: String, - - pub id: String, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingTumorSpecimenType { - pub code: TumorSpecimenType, +pub struct CodingTumorSpecimen { + pub code: CodingTumorSpecimenCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, #[serde(skip_serializing_if = "Option::is_none")] pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum TumorSpecimenType { +pub enum CodingTumorSpecimenCode { #[serde(rename = "cryo-frozen")] CryoFrozen, @@ -1993,6 +2702,6 @@ pub enum TumorSpecimenType { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct Therapy { - pub history: Vec, +pub struct SystemicTherapy { + pub history: Vec, } diff --git a/tests/mv64e-mtb-fake-patient.json b/tests/mv64e-mtb-fake-patient.json index 94ec8ad..c82d951 100644 --- a/tests/mv64e-mtb-fake-patient.json +++ b/tests/mv64e-mtb-fake-patient.json @@ -1 +1,2243 @@ -{"patient":{"id":"b944f6b0-d65f-432c-9e6f-e6d3a4ea79f2","gender":{"code":"male","display":"Männlich","system":"Gender"},"birthDate":"1982-12-20","dateOfDeath":"2016-12-20","healthInsurance":{"extId":{"value":"aok-ik","system":"IK"},"display":"AOK","type":"Organization"},"age":{"value":34,"unit":"Years"},"vitalStatus":{"code":"deceased","display":"Verstorben","system":"dnpm-dip/patient/vital-status"}},"episodesOfCare":[{"id":"0a9c7aa4-2d50-4798-9903-a3e378e4cf47","patient":{"id":"b944f6b0-d65f-432c-9e6f-e6d3a4ea79f2","type":"Patient"},"period":{"start":"2024-06-05"},"diagnoses":[{"id":"78d5b572-c3fa-4d26-8a07-302a28956b80","type":"MTBDiagnosis"}]}],"diagnoses":[{"id":"78d5b572-c3fa-4d26-8a07-302a28956b80","patient":{"id":"b944f6b0-d65f-432c-9e6f-e6d3a4ea79f2","type":"Patient"},"recordedOn":"2013-07-20","code":{"code":"C72.8","display":"Bösartige Neubildung: Gehirn und andere Teile des Zentralnervensystems, mehrere Teilbereiche 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"id" : "744bf622-ba4b-4e64-867c-0807847d9da4", + "display" : "Bösartige Neubildung: Konjunktiva", + "type" : "MTBDiagnosis" + }, + "issuedOn" : "2025-04-03", + "levelOfEvidence" : { + "code" : "m1B", + "display" : "m1B", + "system" : "dnpm-dip/mtb/level-of-evidence/grading" + }, + "priority" : { + "code" : "1", + "display" : "1", + "system" : "dnpm-dip/recommendation/priority" + }, + "study" : [ { + "id" : "fe066270-e69e-4fc7-95b1-59a3e8456a11", + "system" : "EUDAMED", + "type" : "Study" + } ], + "supportingVariants" : [ { + "variant" : { + "id" : "7acb8b5a-28e5-49e8-9af0-8f0b07dd7928", + "type" : "Variant" + }, + "gene" : { + "code" : "HGNC:6407", + "display" : "KRAS", + "system" : "https://www.genenames.org/" + } + } ] + } ], + "histologyReevaluationRequests" : [ { + "id" : "d9565325-726d-4fc8-bfa9-0fa4c0b53d7b", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "specimen" : { + "id" : "b0557dde-6e54-4d01-8982-7ff88313adaa", + "type" : "TumorSpecimen" + }, + "issuedOn" : "2025-04-03" + } ], + "rebiopsyRequests" : [ { + "id" : "858ce32e-3dea-4cdf-b85a-ae9fa84d113b", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "tumorEntity" : { + "id" : "744bf622-ba4b-4e64-867c-0807847d9da4", + "type" : "MTBDiagnosis" + }, + "issuedOn" : "2025-04-03" + } ], + "notes" : [ "Protocol of the MTB conference..." ] + } ], + "followUps" : [ { + "date" : "2006-12-10" + } ], + "claims" : [ { + "id" : "d7afc9e8-5342-443d-9e13-0a88b4dd6037", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "recommendation" : { + "id" : "083a04e9-05f3-4b37-9e7d-e0bf703a8c3c", + "type" : "MTBMedicationRecommendation" + }, + "issuedOn" : "2025-04-03", + "stage" : { + "code" : "initial-claim", + "display" : "Erstantrag", + "system" : "dnpm-dip/mtb/claim/stage" + } + }, { + "id" : "2ef6b3c7-ce7e-4415-8a43-bd7a3a67be95", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "recommendation" : { + "id" : "5650387b-2f3b-4f77-863c-9af4d02294fb", + "type" : "MTBMedicationRecommendation" + }, + "issuedOn" : "2025-04-03", + "stage" : { + "code" : "revocation", + "display" : "Widerspruch", + "system" : "dnpm-dip/mtb/claim/stage" + } + } ], + "claimResponses" : [ { + "id" : "d9085718-77f6-4ace-b6da-c9358c853ff0", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "claim" : { + "id" : "d7afc9e8-5342-443d-9e13-0a88b4dd6037", + "type" : "Claim" + }, + "issuedOn" : "2025-04-03", + "status" : { + "code" : "rejected", + "display" : "Abgelehnt", + "system" : "dnpm-dip/mtb/claim-response/status" + }, + "statusReason" : { + "code" : "unknown", + "display" : "Unbekant", + "system" : "dnpm-dip/mtb/claim-response/status-reason" + } + }, { + "id" : "d93a0943-628d-47c6-9eda-4fba38df42be", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "claim" : { + "id" : "2ef6b3c7-ce7e-4415-8a43-bd7a3a67be95", + "type" : "Claim" + }, + "issuedOn" : "2025-04-03", + "status" : { + "code" : "rejected", + "display" : "Abgelehnt", + "system" : "dnpm-dip/mtb/claim-response/status" + }, + "statusReason" : { + "code" : "approval-revocation", + "display" : "Rücknahme der Zulassung", + "system" : "dnpm-dip/mtb/claim-response/status-reason" + } + } ], + "systemicTherapies" : [ { + "history" : [ { + "id" : "6b150d30-1c82-4663-833f-6a12ac582ca4", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "reason" : { + "id" : "744bf622-ba4b-4e64-867c-0807847d9da4", + "display" : "Bösartige Neubildung: Konjunktiva", + "type" : "MTBDiagnosis" + }, + "intent" : { + "code" : "S", + "display" : "Sonstiges", + "system" : "dnpm-dip/therapy/intent" + }, + "category" : { + "code" : "I", + "display" : "Intraopterativ", + "system" : "dnpm-dip/therapy/category" + }, + "basedOn" : { + "id" : "083a04e9-05f3-4b37-9e7d-e0bf703a8c3c", + "type" : "MTBMedicationRecommendation" + }, + "recordedOn" : "2025-04-03", + "status" : { + "code" : "stopped", + "display" : "Abgebrochen", + "system" : "dnpm-dip/therapy/status" + }, + "statusReason" : { + "code" : "progression", + "display" : "Progression", + "system" : "dnpm-dip/therapy/status-reason" + }, + "recommendationFulfillmentStatus" : { + "code" : "complete", + "display" : "Komplett", + "system" : "dnpm-dip/therapy/recommendation-fulfillment-status" + }, + "period" : { + "start" : "2006-10-15", + "end" : "2007-02-25" + }, + "medication" : [ { + "code" : "L01EN01", + "display" : "Erdafitinib", + "system" : "http://fhir.de/CodeSystem/bfarm/atc", + "version" : "2024" + } ], + "notes" : [ "Notes on the therapy..." ] + } ] + }, { + "history" : [ { + "id" : "27b6eddc-1a4f-4d68-a027-190a2c38754b", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "reason" : { + "id" : "744bf622-ba4b-4e64-867c-0807847d9da4", + "display" : "Bösartige Neubildung: Konjunktiva", + "type" : "MTBDiagnosis" + }, + "intent" : { + "code" : "X", + "display" : "Keine Angabe", + "system" : "dnpm-dip/therapy/intent" + }, + "category" : { + "code" : "A", + "display" : "Adjuvant", + "system" : "dnpm-dip/therapy/category" + }, + "basedOn" : { + "id" : "5650387b-2f3b-4f77-863c-9af4d02294fb", + "type" : "MTBMedicationRecommendation" + }, + "recordedOn" : "2025-04-03", + "status" : { + "code" : "stopped", + "display" : "Abgebrochen", + "system" : "dnpm-dip/therapy/status" + }, + "statusReason" : { + "code" : "progression", + "display" : "Progression", + "system" : "dnpm-dip/therapy/status-reason" + }, + "recommendationFulfillmentStatus" : { + "code" : "partial", + "display" : "Partiell", + "system" : "dnpm-dip/therapy/recommendation-fulfillment-status" + }, + "period" : { + "start" : "2006-10-29", + "end" : "2007-02-25" + }, + "medication" : [ { + "code" : "L01FX33", + "display" : "Tarlatamab", + "system" : "http://fhir.de/CodeSystem/bfarm/atc", + "version" : "2024" + } ], + "notes" : [ "Notes on the therapy..." ] + } ] + } ], + "responses" : [ { + "id" : "bbbbbaaf-8486-454c-ba59-28593519342c", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "therapy" : { + "id" : "6b150d30-1c82-4663-833f-6a12ac582ca4", + "type" : "MTBSystemicTherapy" + }, + "effectiveDate" : "2006-12-10", + "method" : { + "code" : "RECIST", + "display" : "Nach RECIST-Kriterien", + "system" : "dnpm-dip/mtb/response/method" + }, + "value" : { + "code" : "SD", + "display" : "Stable Disease", + "system" : "RECIST" + } + }, { + "id" : "6b93b820-4d03-4883-af96-cf504fa6798e", + "patient" : { + "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", + "type" : "Patient" + }, + "therapy" : { + "id" : "27b6eddc-1a4f-4d68-a027-190a2c38754b", + "type" : "MTBSystemicTherapy" + }, + "effectiveDate" : "2007-02-11", + "method" : { + "code" : "RECIST", + "display" : "Nach RECIST-Kriterien", + "system" : "dnpm-dip/mtb/response/method" + }, + "value" : { + "code" : "PD", + "display" : "Progressive Disease", + "system" : "RECIST" + } + } ] +} From b60718e1201a039056f84cfc59ecbac2dc38b527 Mon Sep 17 00:00:00 2001 From: Paul-Christian Volkmer Date: Fri, 30 May 2025 18:35:10 +0200 Subject: [PATCH 2/2] chore: update to latest data model version --- Cargo.toml | 2 +- src/lib.rs | 9 +- src/mtb.rs | 686 +++-- tests/mv64e-mtb-fake-patient.json | 4771 ++++++++++++++++------------- 4 files changed, 2984 insertions(+), 2484 deletions(-) diff --git a/Cargo.toml b/Cargo.toml index 0524e7d..954a225 100644 --- a/Cargo.toml +++ b/Cargo.toml @@ -1,7 +1,7 @@ [package] name = "mv64e-mtb-dto" version = "0.1.0" -edition = "2021" +edition = "2024" license = "MIT" authors = ["Paul-Christian Volkmer "] diff --git a/src/lib.rs b/src/lib.rs index 46a31c6..d09eae7 100644 --- a/src/lib.rs +++ b/src/lib.rs @@ -72,16 +72,16 @@ impl Mtb { age: None, birth_date: String::new(), date_of_death: None, - gender: CodingGender { - code: GenderCode::Female, + gender: GenderCoding { + code: GenderCodingCode::Female, display: None, system: None, version: None, }, id: patient_id.to_string(), health_insurance: HealthInsurance { - health_insurance_type: CodingHealthInsurance { - code: CodingHealthInsuranceCode::Bei, + health_insurance_type: HealthInsuranceCoding { + code: HealthInsuranceCodingCode::Bei, display: None, system: None, version: None, @@ -97,6 +97,7 @@ impl Mtb { follow_ups: None, prior_diagnostic_reports: None, systemic_therapies: None, + metadata: None, } } } diff --git a/src/mtb.rs b/src/mtb.rs index 03166a3..e2337b3 100644 --- a/src/mtb.rs +++ b/src/mtb.rs @@ -1,3 +1,4 @@ +use std::collections::HashMap; use serde::{Deserialize, Serialize}; #[derive(Debug, Serialize, Deserialize)] @@ -33,7 +34,10 @@ pub struct Mtb { pub ihc_reports: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub ngs_reports: Option>, + pub metadata: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub ngs_reports: Option>, pub patient: Patient, @@ -70,6 +74,9 @@ pub struct MtbCarePlan { #[serde(skip_serializing_if = "Option::is_none")] pub medication_recommendations: Option>, + #[serde(skip_serializing_if = "Option::is_none")] + pub no_sequencing_performed_reason: Option, + #[serde(skip_serializing_if = "Option::is_none")] pub notes: Option>, @@ -85,7 +92,7 @@ pub struct MtbCarePlan { pub rebiopsy_requests: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub recommendations_missing_reason: Option, #[serde(skip_serializing_if = "Option::is_none")] pub study_enrollment_recommendations: Option>, @@ -101,7 +108,7 @@ pub struct GeneticCounselingRecommendation { pub patient: Reference, - pub reason: CodingGeneticCounselingRecommendationReason, + pub reason: GeneticCounselingRecommendationReasonCoding, } #[derive(Debug, Serialize, Deserialize)] @@ -122,8 +129,8 @@ pub struct Reference { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingGeneticCounselingRecommendationReason { - pub code: ReasonCode, +pub struct GeneticCounselingRecommendationReasonCoding { + pub code: GeneticCounselingRecommendationReasonCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -138,7 +145,7 @@ pub struct CodingGeneticCounselingRecommendationReason { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum ReasonCode { +pub enum GeneticCounselingRecommendationReasonCodingCode { #[serde(rename = "family-anamnesis")] FamilyAnamnesis, @@ -171,7 +178,7 @@ pub struct HistologyReevaluationRequest { #[serde(rename_all = "camelCase")] pub struct MtbMedicationRecommendation { #[serde(skip_serializing_if = "Option::is_none")] - pub category: Option, + pub category: Option, pub id: String, @@ -180,11 +187,11 @@ pub struct MtbMedicationRecommendation { #[serde(skip_serializing_if = "Option::is_none")] pub level_of_evidence: Option, - pub medication: Vec, + pub medication: Vec, pub patient: Reference, - pub priority: CodingRecommendationPriority, + pub priority: RecommendationPriorityCoding, #[serde(skip_serializing_if = "Option::is_none")] pub reason: Option, @@ -193,13 +200,13 @@ pub struct MtbMedicationRecommendation { pub supporting_variants: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub use_type: Option, + pub use_type: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbMedicationRecommendationCategory { - pub code: CodingMtbMedicationRecommendationCategoryCode, +pub struct MtbMedicationRecommendationCategoryCoding { + pub code: MtbMedicationRecommendationCategoryCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -213,7 +220,7 @@ pub struct CodingMtbMedicationRecommendationCategory { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingMtbMedicationRecommendationCategoryCode { +pub enum MtbMedicationRecommendationCategoryCodingCode { #[serde(rename = "CH")] Ch, @@ -237,9 +244,9 @@ pub enum CodingMtbMedicationRecommendationCategoryCode { #[serde(deny_unknown_fields)] pub struct LevelOfEvidence { #[serde(skip_serializing_if = "Option::is_none")] - pub addendums: Option>, + pub addendums: Option>, - pub grading: CodingLevelOfEvidenceGrading, + pub grading: LevelOfEvidenceGradingCoding, #[serde(skip_serializing_if = "Option::is_none")] pub publications: Option>, @@ -247,8 +254,8 @@ pub struct LevelOfEvidence { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingLevelOfEvidenceAddendum { - pub code: AddendumCode, +pub struct LevelOfEvidenceAddendumCoding { + pub code: LevelOfEvidenceAddendumCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -262,7 +269,7 @@ pub struct CodingLevelOfEvidenceAddendum { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum AddendumCode { +pub enum LevelOfEvidenceAddendumCodingCode { #[serde(rename = "is")] Is, @@ -276,8 +283,8 @@ pub enum AddendumCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingLevelOfEvidenceGrading { - pub code: LevelOfEvidenceCode, +pub struct LevelOfEvidenceGradingCoding { + pub code: LevelOfEvidenceGradingCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -292,7 +299,7 @@ pub struct CodingLevelOfEvidenceGrading { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub enum LevelOfEvidenceCode { +pub enum LevelOfEvidenceGradingCodingCode { #[serde(rename = "m1A")] M1A, @@ -337,15 +344,15 @@ pub struct PublicationReference { #[serde(deny_unknown_fields)] pub enum PublicationSystem { #[serde(rename = "https://pubmed.ncbi.nlm.nih.gov")] - HttpsPubmedNcbiNlmNihGov, + PubmedNcbiNlmNihGov, #[serde(rename = "https://www.doi.org")] - HttpsWwwDoiOrg, + DoiOrg, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingAtcUnregisteredMedication { +pub struct AtcUnregisteredMedicationCoding { pub code: String, #[serde(skip_serializing_if = "Option::is_none")] @@ -362,15 +369,15 @@ pub struct CodingAtcUnregisteredMedication { #[serde(rename_all = "snake_case")] pub enum RequestedMedicationSystem { #[serde(rename = "http://fhir.de/CodeSystem/bfarm/atc")] - HttpFhirDeCodeSystemBfarmAtc, + FhirDeCodeSystemBfarmAtc, Undefined, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingRecommendationPriority { - pub code: PriorityCode, +pub struct RecommendationPriorityCoding { + pub code: RecommendationPriorityCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -384,18 +391,18 @@ pub struct CodingRecommendationPriority { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum PriorityCode { +pub enum RecommendationPriorityCodingCode { #[serde(rename = "1")] - The1, + Code1, #[serde(rename = "2")] - The2, + Code2, #[serde(rename = "3")] - The3, + Code3, #[serde(rename = "4")] - The4, + Code4, } #[derive(Debug, Serialize, Deserialize)] @@ -427,8 +434,8 @@ pub struct Coding { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbMedicationRecommendationUseType { - pub code: UseTypeCode, +pub struct MtbMedicationRecommendationUseTypeCoding { + pub code: MtbMedicationRecommendationUseTypeCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -443,7 +450,7 @@ pub struct CodingMtbMedicationRecommendationUseType { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum UseTypeCode { +pub enum MtbMedicationRecommendationUseTypeCodingCode { Compassionate, #[serde(rename = "in-label")] @@ -460,32 +467,8 @@ pub enum UseTypeCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -#[serde(rename_all = "camelCase")] -pub struct ProcedureRecommendation { - pub code: CodingMtbProcedureRecommendationCategory, - - pub id: String, - - pub issued_on: String, - - #[serde(skip_serializing_if = "Option::is_none")] - pub level_of_evidence: Option, - - pub patient: Reference, - - pub priority: CodingRecommendationPriority, - - #[serde(skip_serializing_if = "Option::is_none")] - pub reason: Option, - - #[serde(skip_serializing_if = "Option::is_none")] - pub supporting_variants: Option>, -} - -#[derive(Debug, Serialize, Deserialize)] -#[serde(deny_unknown_fields)] -pub struct CodingMtbProcedureRecommendationCategory { - pub code: CodingMtbProcedureRecommendationCategoryCode, +pub struct CarePlanNoSequencingPerformedReasonCoding { + pub code: NoSequencingPerformedReasonCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -499,7 +482,64 @@ pub struct CodingMtbProcedureRecommendationCategory { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingMtbProcedureRecommendationCategoryCode { +#[serde(rename_all = "kebab-case")] +pub enum NoSequencingPerformedReasonCode { + #[serde(rename = "non-genetic-cause")] + NonGeneticCause, + + #[serde(rename = "not-rare-disease")] + NotRareDisease, + + Other, + + Psychosomatic, + + #[serde(rename = "targeted-diagnostics-recommended")] + TargetedDiagnosticsRecommended, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct ProcedureRecommendation { + pub code: MtbProcedureRecommendationCategoryCoding, + + pub id: String, + + pub issued_on: String, + + #[serde(skip_serializing_if = "Option::is_none")] + pub level_of_evidence: Option, + + pub patient: Reference, + + pub priority: RecommendationPriorityCoding, + + #[serde(skip_serializing_if = "Option::is_none")] + pub reason: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub supporting_variants: Option>, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct MtbProcedureRecommendationCategoryCoding { + pub code: MtbProcedureRecommendationCategoryCodingCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum MtbProcedureRecommendationCategoryCodingCode { #[serde(rename = "AS")] As, @@ -534,8 +574,8 @@ pub struct RebiopsyRequest { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbCarePlanStatusReason { - pub code: CodingMtbCarePlanStatusReasonCode, +pub struct MtbCarePlanRecommendationsMissingReasonCoding { + pub code: MtbCarePlanRecommendationsMissingReasonCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -550,22 +590,9 @@ pub struct CodingMtbCarePlanStatusReason { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingMtbCarePlanStatusReasonCode { +pub enum MtbCarePlanRecommendationsMissingReasonCodingCode { #[serde(rename = "no-target")] NoTarget, - - #[serde(rename = "non-genetic-cause")] - NonGeneticCause, - - #[serde(rename = "not-rare-disease")] - NotRareDisease, - - Other, - - Psychosomatic, - - #[serde(rename = "targeted-diagnostics-recommended")] - TargetedDiagnosticsRecommended, } #[derive(Debug, Serialize, Deserialize)] @@ -577,14 +604,14 @@ pub struct MtbStudyEnrollmentRecommendation { pub issued_on: String, #[serde(skip_serializing_if = "Option::is_none")] - pub level_of_evidence: Option, + pub level_of_evidence: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub medication: Option>, + pub medication: Option>, pub patient: Reference, - pub priority: CodingRecommendationPriority, + pub priority: RecommendationPriorityCoding, pub reason: Reference, @@ -637,16 +664,16 @@ pub struct ClaimResponse { pub patient: Reference, - pub status: CodingClaimResponseStatus, + pub status: ClaimResponseStatusCoding, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub status_reason: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingClaimResponseStatus { - pub code: CodingClaimResponseStatusCode, +pub struct ClaimResponseStatusCoding { + pub code: ClaimResponseStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -661,7 +688,7 @@ pub struct CodingClaimResponseStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum CodingClaimResponseStatusCode { +pub enum ClaimResponseStatusCodingCode { Accepted, Rejected, @@ -671,8 +698,8 @@ pub enum CodingClaimResponseStatusCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingClaimResponseStatusReason { - pub code: CodingClaimResponseStatusReasonCode, +pub struct ClaimResponseStatusReasonCoding { + pub code: ClaimResponseStatusReasonCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -687,7 +714,7 @@ pub struct CodingClaimResponseStatusReason { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingClaimResponseStatusReasonCode { +pub enum ClaimResponseStatusReasonCodingCode { #[serde(rename = "approval-revocation")] ApprovalRevocation, @@ -724,16 +751,16 @@ pub struct Claim { pub recommendation: Reference, #[serde(skip_serializing_if = "Option::is_none")] - pub requested_medication: Option>, + pub requested_medication: Option>, #[serde(skip_serializing_if = "Option::is_none")] - pub stage: Option, + pub stage: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingClaimStage { - pub code: StageCode, +pub struct ClaimStageCoding { + pub code: ClaimStageCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -748,7 +775,7 @@ pub struct CodingClaimStage { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum StageCode { +pub enum ClaimStageCodingCode { #[serde(rename = "follow-up-claim")] FollowUpClaim, @@ -773,7 +800,7 @@ pub struct MtbDiagnosis { pub grading: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub guideline_treatment_status: Option, + pub guideline_treatment_status: Option, #[serde(skip_serializing_if = "Option::is_none")] pub histology: Option>, @@ -788,14 +815,12 @@ pub struct MtbDiagnosis { pub patient: Reference, - #[serde(skip_serializing_if = "Option::is_none")] - pub recorded_on: Option, + pub recorded_on: String, #[serde(skip_serializing_if = "Option::is_none")] pub staging: Option, - #[serde(skip_serializing_if = "Option::is_none")] - pub topography: Option, + pub topography: Coding, } #[derive(Debug, Serialize, Deserialize)] @@ -814,8 +839,8 @@ pub struct TumorGrading { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbDiagnosisGuidelineTreatmentStatus { - pub code: GuidelineTreatmentStatusCode, +pub struct MtbDiagnosisGuidelineTreatmentStatusCoding { + pub code: MtbDiagnosisGuidelineTreatmentStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -830,7 +855,7 @@ pub struct CodingMtbDiagnosisGuidelineTreatmentStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum GuidelineTreatmentStatusCode { +pub enum MtbDiagnosisGuidelineTreatmentStatusCodingCode { Exhausted, Impossible, @@ -855,13 +880,13 @@ pub struct Type { pub struct History { pub date: String, - pub value: CodingMtbDiagnosis, + pub value: MtbDiagnosisCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbDiagnosis { - pub code: CodingMtbDiagnosisCode, +pub struct MtbDiagnosisCoding { + pub code: ValueCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -876,7 +901,7 @@ pub struct CodingMtbDiagnosis { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum CodingMtbDiagnosisCode { +pub enum ValueCode { Main, Metachronous, @@ -896,7 +921,7 @@ pub struct Staging { pub struct TumorStaging { pub date: String, - pub method: CodingTumorStagingMethod, + pub method: TumorStagingMethodCoding, #[serde(skip_serializing_if = "Option::is_none")] pub other_classifications: Option>, @@ -907,8 +932,8 @@ pub struct TumorStaging { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTumorStagingMethod { - pub code: CodingTumorStagingMethodCode, +pub struct TumorStagingMethodCoding { + pub code: TumorStagingMethodCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -923,7 +948,7 @@ pub struct CodingTumorStagingMethod { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum CodingTumorStagingMethodCode { +pub enum TumorStagingMethodCodingCode { Clinical, Pathologic, @@ -968,13 +993,18 @@ pub struct FollowUp { pub date: String, #[serde(skip_serializing_if = "Option::is_none")] - pub patient_status: Option, + pub last_contact_date: Option, + + pub patient: Reference, + + #[serde(skip_serializing_if = "Option::is_none")] + pub patient_status: Option, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingFollowUpPatientStatus { - pub code: PatientStatusCode, +pub struct FollowUpPatientStatusCoding { + pub code: FollowUpPatientStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -989,7 +1019,7 @@ pub struct CodingFollowUpPatientStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum PatientStatusCode { +pub enum FollowUpPatientStatusCodingCode { #[serde(rename = "lost-to-fu")] LostToFu, } @@ -1001,12 +1031,12 @@ pub struct OncoProcedure { #[serde(skip_serializing_if = "Option::is_none")] pub based_on: Option, - pub code: CodingOncoProcedure, + pub code: OncoProcedureCoding, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub intent: Option, + pub intent: Option, #[serde(skip_serializing_if = "Option::is_none")] pub notes: Option>, @@ -1021,10 +1051,10 @@ pub struct OncoProcedure { pub recorded_on: String, - pub status: CodingTherapyStatus, + pub status: TherapyStatusCoding, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub status_reason: Option, #[serde(skip_serializing_if = "Option::is_none")] pub therapy_line: Option, @@ -1032,8 +1062,8 @@ pub struct OncoProcedure { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingOncoProcedure { - pub code: CodingOncoProcedureCode, +pub struct OncoProcedureCoding { + pub code: OncoProcedureCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1048,7 +1078,7 @@ pub struct CodingOncoProcedure { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingOncoProcedureCode { +pub enum OncoProcedureCodingCode { #[serde(rename = "nuclear-medicine")] NuclearMedicine, @@ -1060,8 +1090,8 @@ pub enum CodingOncoProcedureCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbTherapyIntent { - pub code: IntentCode, +pub struct MtbTherapyIntentCoding { + pub code: MtbTherapyIntentCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1075,7 +1105,7 @@ pub struct CodingMtbTherapyIntent { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum IntentCode { +pub enum MtbTherapyIntentCodingCode { K, P, @@ -1087,8 +1117,8 @@ pub enum IntentCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTherapyStatus { - pub code: CodingTherapyStatusCode, +pub struct TherapyStatusCoding { + pub code: TherapyStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1103,7 +1133,7 @@ pub struct CodingTherapyStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingTherapyStatusCode { +pub enum TherapyStatusCodingCode { Completed, #[serde(rename = "not-done")] @@ -1119,8 +1149,8 @@ pub enum CodingTherapyStatusCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbTherapyStatusReason { - pub code: CodingMtbTherapyStatusReasonCode, +pub struct MtbTherapyStatusReasonCoding { + pub code: MtbTherapyStatusReasonCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1135,7 +1165,7 @@ pub struct CodingMtbTherapyStatusReason { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingMtbTherapyStatusReasonCode { +pub enum MtbTherapyStatusReasonCodingCode { #[serde(rename = "best-supportive-care")] BestSupportiveCare, @@ -1198,15 +1228,18 @@ pub struct MtbSystemicTherapy { pub based_on: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub category: Option, + pub category: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub dosage: Option, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub intent: Option, + pub intent: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub medication: Option>, + pub medication: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub notes: Option>, @@ -1220,14 +1253,14 @@ pub struct MtbSystemicTherapy { pub reason: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub recommendation_fulfillment_status: Option, + pub recommendation_fulfillment_status: Option, pub recorded_on: String, - pub status: CodingTherapyStatus, + pub status: TherapyStatusCoding, #[serde(skip_serializing_if = "Option::is_none")] - pub status_reason: Option, + pub status_reason: Option, #[serde(skip_serializing_if = "Option::is_none")] pub therapy_line: Option, @@ -1235,8 +1268,8 @@ pub struct MtbSystemicTherapy { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbSystemicTherapyCategory { - pub code: CodingMtbSystemicTherapyCategoryCode, +pub struct MtbSystemicTherapyCategoryCoding { + pub code: MtbSystemicTherapyCategoryCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1250,7 +1283,7 @@ pub struct CodingMtbSystemicTherapyCategory { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingMtbSystemicTherapyCategoryCode { +pub enum MtbSystemicTherapyCategoryCodingCode { A, I, @@ -1264,8 +1297,33 @@ pub enum CodingMtbSystemicTherapyCategoryCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMtbSystemicTherapyRecommendationFulfillmentStatus { - pub code: RecommendationFulfillmentStatusCode, +pub struct MtbSystemicTherapyDosageDensityCoding { + pub code: MtbSystemicTherapyDosageDensityCodingCode, + + #[serde(skip_serializing_if = "Option::is_none")] + pub display: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub system: Option, + + #[serde(skip_serializing_if = "Option::is_none")] + pub version: Option, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub enum MtbSystemicTherapyDosageDensityCodingCode { + #[serde(rename = "over-50%")] + Over50, + + #[serde(rename = "under-50%")] + Under50, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct MtbSystemicTherapyRecommendationFulfillmentStatusCoding { + pub code: MtbSystemicTherapyRecommendationFulfillmentStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1280,7 +1338,7 @@ pub struct CodingMtbSystemicTherapyRecommendationFulfillmentStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum RecommendationFulfillmentStatusCode { +pub enum MtbSystemicTherapyRecommendationFulfillmentStatusCodingCode { Complete, Partial, @@ -1316,7 +1374,7 @@ pub struct HistologyReportResults { pub struct TumorCellContent { pub id: String, - pub method: CodingTumorCellContentMethod, + pub method: TumorCellContentMethodCoding, pub patient: Reference, @@ -1327,8 +1385,8 @@ pub struct TumorCellContent { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTumorCellContentMethod { - pub code: CodingTumorCellContentMethodCode, +pub struct TumorCellContentMethodCoding { + pub code: TumorCellContentMethodCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1343,7 +1401,7 @@ pub struct CodingTumorCellContentMethod { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum CodingTumorCellContentMethodCode { +pub enum TumorCellContentMethodCodingCode { Bioinformatic, Histologic, @@ -1355,7 +1413,7 @@ pub struct TumorMorphology { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub notes: Option, + pub note: Option, pub patient: Reference, @@ -1397,7 +1455,7 @@ pub struct IhcReportResults { #[serde(rename_all = "camelCase")] pub struct MsiMmr { #[serde(skip_serializing_if = "Option::is_none")] - pub ic_score: Option, + pub ic_score: Option, pub id: String, @@ -1406,18 +1464,18 @@ pub struct MsiMmr { pub protein: Coding, #[serde(skip_serializing_if = "Option::is_none")] - pub tc_score: Option, + pub tc_score: Option, #[serde(skip_serializing_if = "Option::is_none")] pub tps_score: Option, - pub value: CodingProteinExpressionResult, + pub value: ProteinExpressionResultCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingProteinExpressionIcScore { - pub code: IcScoreCode, +pub struct ProteinExpressionIcScoreCoding { + pub code: ProteinExpressionIcScoreCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1431,24 +1489,24 @@ pub struct CodingProteinExpressionIcScore { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum IcScoreCode { +pub enum ProteinExpressionIcScoreCodingCode { #[serde(rename = "0")] - The0, + Code0, #[serde(rename = "1")] - The1, + Code1, #[serde(rename = "2")] - The2, + Code2, #[serde(rename = "3")] - The3, + Code3, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingProteinExpressionTcScore { - pub code: TcScoreCode, +pub struct ProteinExpressionTcScoreCoding { + pub code: ProteinExpressionTcScoreCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1462,33 +1520,33 @@ pub struct CodingProteinExpressionTcScore { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum TcScoreCode { +pub enum ProteinExpressionTcScoreCodingCode { #[serde(rename = "0")] - The0, + Code0, #[serde(rename = "1")] - The1, + Code1, #[serde(rename = "2")] - The2, + Code2, #[serde(rename = "3")] - The3, + Code3, #[serde(rename = "4")] - The4, + Code4, #[serde(rename = "5")] - The5, + Code5, #[serde(rename = "6")] - The6, + Code6, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingProteinExpressionResult { - pub code: ProteinExpressionResultCode, +pub struct ProteinExpressionResultCoding { + pub code: ProteinExpressionResultCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1503,20 +1561,20 @@ pub struct CodingProteinExpressionResult { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum ProteinExpressionResultCode { +pub enum ProteinExpressionResultCodingCode { Exp, #[serde(rename = "not-exp")] NotExp, #[serde(rename = "1+")] - The1, + Code1Plus, #[serde(rename = "2+")] - The2, + Code2Plus, #[serde(rename = "3+")] - The3, + Code3Plus, Unknown, } @@ -1526,7 +1584,7 @@ pub enum ProteinExpressionResultCode { #[serde(rename_all = "camelCase")] pub struct ProteinExpression { #[serde(skip_serializing_if = "Option::is_none")] - pub ic_score: Option, + pub ic_score: Option, pub id: String, @@ -1535,30 +1593,102 @@ pub struct ProteinExpression { pub protein: Coding, #[serde(skip_serializing_if = "Option::is_none")] - pub tc_score: Option, + pub tc_score: Option, #[serde(skip_serializing_if = "Option::is_none")] pub tps_score: Option, - pub value: CodingProteinExpressionResult, + pub value: ProteinExpressionResultCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct SomaticNgsReportMetadata { +pub struct MvhMetadata { + pub model_project_consent: ModelProjectConsent, + + #[serde(rename = "type")] + pub mvh_metadata_type: MvhSubmissionType, + + #[serde(skip_serializing_if = "Option::is_none")] + pub research_consents: Option>>>, + + #[serde(rename = "transferTAN")] + pub transfer_tan: String, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct ModelProjectConsent { + #[serde(skip_serializing_if = "Option::is_none")] + pub date: Option, + + pub provisions: Vec, + + pub version: String, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +pub struct Provision { + pub date: String, + + #[serde(rename = "type")] + pub provision_type: ConsentProvision, + + pub purpose: ModelProjectConsentPurpose, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum ConsentProvision { + Deny, + + Permit, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "kebab-case")] +pub enum ModelProjectConsentPurpose { + #[serde(rename = "case-identification")] + CaseIdentification, + + Reidentification, + + Sequencing, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "snake_case")] +pub enum MvhSubmissionType { + Addition, + + Correction, + + Followup, + + Initial, +} + +#[derive(Debug, Serialize, Deserialize)] +#[serde(deny_unknown_fields)] +#[serde(rename_all = "camelCase")] +pub struct SomaticNgsReport { pub id: String, pub issued_on: String, - pub metadata: Vec, + pub metadata: Vec, pub patient: Reference, pub results: NgsReportResults, #[serde(rename = "type")] - pub somatic_ngs_report_metadata_type: CodingNgsReport, + pub somatic_ngs_report_type: NgsReportCoding, pub specimen: Reference, } @@ -1566,7 +1696,7 @@ pub struct SomaticNgsReportMetadata { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct Metadata { +pub struct NgsReportMetadata { pub kit_manufacturer: String, pub kit_type: String, @@ -1583,20 +1713,25 @@ pub struct Metadata { #[serde(rename_all = "camelCase")] pub struct NgsReportResults { #[serde(skip_serializing_if = "Option::is_none")] - pub brcaness: Option, + pub brcaness: Option, - pub copy_number_variants: Vec, + #[serde(skip_serializing_if = "Option::is_none")] + pub copy_number_variants: Option>, - pub dna_fusions: Vec, + #[serde(skip_serializing_if = "Option::is_none")] + pub dna_fusions: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub hrd_score: Option, - pub rna_fusions: Vec, + #[serde(skip_serializing_if = "Option::is_none")] + pub rna_fusions: Option>, - pub rna_seqs: Vec, + #[serde(skip_serializing_if = "Option::is_none")] + pub rna_seqs: Option>, - pub simple_variants: Vec, + #[serde(skip_serializing_if = "Option::is_none")] + pub simple_variants: Option>, #[serde(skip_serializing_if = "Option::is_none")] pub tmb: Option, @@ -1608,7 +1743,7 @@ pub struct NgsReportResults { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "camelCase")] -pub struct BrcAness { +pub struct Brcaness { pub confidence_range: ConfidenceRange, pub id: String, @@ -1641,7 +1776,7 @@ pub struct Cnv { pub cn_b: Option, #[serde(rename = "type")] - pub cnv_type: CodingCnv, + pub cnv_type: CnvCoding, #[serde(skip_serializing_if = "Option::is_none")] pub copy_number_neutral_lo_h: Option>, @@ -1655,7 +1790,7 @@ pub struct Cnv { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub localization: Option>, + pub localization: Option>, pub patient: Reference, @@ -1732,8 +1867,8 @@ pub enum Chromosome { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingCnv { - pub code: CodingCnvCode, +pub struct CnvCoding { + pub code: CnvCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1748,7 +1883,7 @@ pub struct CodingCnv { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingCnvCode { +pub enum CnvCodingCode { #[serde(rename = "high-level-gain")] HighLevelGain, @@ -1779,22 +1914,22 @@ pub struct VariantExternalId { #[serde(deny_unknown_fields)] pub enum ExternalIdSystem { #[serde(rename = "https://cancer.sanger.ac.uk/cosmic")] - HttpsCancerSangerAcUkCosmic, + CancerSangerAcUkCosmic, #[serde(rename = "https://www.ensembl.org")] - HttpsWwwEnsemblOrg, + EnsemblOrg, #[serde(rename = "https://www.ncbi.nlm.nih.gov/entrez")] - HttpsWwwNcbiNlmNihGovEntrez, + NcbiNlmNihGovEntrez, #[serde(rename = "https://www.ncbi.nlm.nih.gov/snp")] - HttpsWwwNcbiNlmNihGovSnp, + NcbiNlmNihGovSnp, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingBaseVariantLocalization { - pub code: CodingBaseVariantLocalizationCode, +pub struct BaseVariantLocalizationCoding { + pub code: BaseVariantLocalizationCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1809,7 +1944,7 @@ pub struct CodingBaseVariantLocalization { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingBaseVariantLocalizationCode { +pub enum BaseVariantLocalizationCodingCode { #[serde(rename = "coding-region")] CodingRegion, @@ -1849,7 +1984,7 @@ pub struct DnaFusion { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub localization: Option>, + pub localization: Option>, pub patient: Reference, @@ -1884,7 +2019,7 @@ pub struct HrdScore { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, pub patient: Reference, @@ -1905,8 +2040,8 @@ pub struct Components { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingHrdScoreInterpretation { - pub code: CodingHrdScoreInterpretationCode, +pub struct HrdScoreInterpretationCoding { + pub code: InterpretationCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -1921,7 +2056,7 @@ pub struct CodingHrdScoreInterpretation { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum CodingHrdScoreInterpretationCode { +pub enum InterpretationCodingCode { High, Intermediate, @@ -1948,7 +2083,7 @@ pub struct RnaFusion { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub localization: Option>, + pub localization: Option>, pub patient: Reference, @@ -1992,10 +2127,10 @@ pub struct TranscriptId { #[serde(deny_unknown_fields)] pub enum TranscriptIdSystem { #[serde(rename = "https://www.ensembl.org")] - HttpsWwwEnsemblOrg, + EnsemblOrg, #[serde(rename = "https://www.ncbi.nlm.nih.gov/refseq")] - HttpsWwwNcbiNlmNihGovRefseq, + NcbiNlmNihGovRefseq, } #[derive(Debug, Serialize, Deserialize)] @@ -2032,7 +2167,7 @@ pub struct RnaSeq { pub library_size: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub localization: Option>, + pub localization: Option>, pub patient: Reference, @@ -2059,8 +2194,7 @@ pub struct Snv { pub chromosome: Chromosome, - #[serde(skip_serializing_if = "Option::is_none")] - pub dna_change: Option, + pub dna_change: String, #[serde(skip_serializing_if = "Option::is_none")] pub exon_id: Option, @@ -2068,23 +2202,22 @@ pub struct Snv { #[serde(skip_serializing_if = "Option::is_none")] pub external_ids: Option>, - #[serde(skip_serializing_if = "Option::is_none")] - pub gene: Option, + pub gene: Coding, pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub localization: Option>, + pub localization: Option>, pub patient: Reference, pub position: Position, #[serde(skip_serializing_if = "Option::is_none")] - pub protein_change: Option, + pub protein_change: Option, pub read_depth: i64, @@ -2095,8 +2228,8 @@ pub struct Snv { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingClinVar { - pub code: CodingClinVarCode, +pub struct ClinVarCoding { + pub code: ClinVarCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2110,21 +2243,21 @@ pub struct CodingClinVar { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingClinVarCode { +pub enum ClinVarCodingCode { #[serde(rename = "1")] - The1, + Code1, #[serde(rename = "2")] - The2, + Code2, #[serde(rename = "3")] - The3, + Code3, #[serde(rename = "4")] - The4, + Code4, #[serde(rename = "5")] - The5, + Code5, } #[derive(Debug, Serialize, Deserialize)] @@ -2142,7 +2275,7 @@ pub struct Tmb { pub id: String, #[serde(skip_serializing_if = "Option::is_none")] - pub interpretation: Option, + pub interpretation: Option, pub patient: Reference, @@ -2153,8 +2286,8 @@ pub struct Tmb { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTmbInterpretation { - pub code: CodingHrdScoreInterpretationCode, +pub struct TmbInterpretationCoding { + pub code: InterpretationCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2177,8 +2310,8 @@ pub struct TmbResult { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingNgsReport { - pub code: CodingNgsReportCode, +pub struct NgsReportCoding { + pub code: NgsReportCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2193,7 +2326,7 @@ pub struct CodingNgsReport { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingNgsReportCode { +pub enum NgsReportCodingCode { Array, Exome, @@ -2227,7 +2360,7 @@ pub struct Patient { #[serde(skip_serializing_if = "Option::is_none")] pub date_of_death: Option, - pub gender: CodingGender, + pub gender: GenderCoding, pub health_insurance: HealthInsurance, @@ -2237,7 +2370,7 @@ pub struct Patient { pub managing_site: Option, #[serde(skip_serializing_if = "Option::is_none")] - pub vital_status: Option, + pub vital_status: Option, } #[derive(Debug, Serialize, Deserialize)] @@ -2265,8 +2398,8 @@ pub enum Unit { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingGender { - pub code: GenderCode, +pub struct GenderCoding { + pub code: GenderCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2281,7 +2414,7 @@ pub struct CodingGender { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum GenderCode { +pub enum GenderCodingCode { Female, Male, @@ -2295,7 +2428,7 @@ pub enum GenderCode { #[serde(deny_unknown_fields)] pub struct HealthInsurance { #[serde(rename = "type")] - pub health_insurance_type: CodingHealthInsurance, + pub health_insurance_type: HealthInsuranceCoding, #[serde(skip_serializing_if = "Option::is_none")] pub reference: Option, @@ -2303,8 +2436,8 @@ pub struct HealthInsurance { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingHealthInsurance { - pub code: CodingHealthInsuranceCode, +pub struct HealthInsuranceCoding { + pub code: HealthInsuranceCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2318,7 +2451,7 @@ pub struct CodingHealthInsurance { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingHealthInsuranceCode { +pub enum HealthInsuranceCodingCode { #[serde(rename = "BEI")] Bei, @@ -2340,6 +2473,9 @@ pub enum CodingHealthInsuranceCode { #[serde(rename = "SEL")] Sel, + #[serde(rename = "SKT")] + Skt, + #[serde(rename = "SOZ")] Soz, @@ -2349,8 +2485,8 @@ pub enum CodingHealthInsuranceCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingVitalStatus { - pub code: VitalStatusCode, +pub struct VitalStatusCoding { + pub code: VitalStatusCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2365,7 +2501,7 @@ pub struct CodingVitalStatus { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "snake_case")] -pub enum VitalStatusCode { +pub enum VitalStatusCodingCode { Alive, Deceased, @@ -2381,13 +2517,13 @@ pub struct PerformanceStatus { pub patient: Reference, - pub value: CodingEcog, + pub value: EcogCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingEcog { - pub code: CodingEcogCode, +pub struct EcogCoding { + pub code: EcogCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2401,24 +2537,24 @@ pub struct CodingEcog { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingEcogCode { +pub enum EcogCodingCode { #[serde(rename = "0")] - The0, + Code0, #[serde(rename = "1")] - The1, + Code1, #[serde(rename = "2")] - The2, + Code2, #[serde(rename = "3")] - The3, + Code3, #[serde(rename = "4")] - The4, + Code4, #[serde(rename = "5")] - The5, + Code5, } #[derive(Debug, Serialize, Deserialize)] @@ -2435,7 +2571,7 @@ pub struct PriorDiagnosticReport { pub performer: Option, #[serde(rename = "type")] - pub prior_diagnostic_report_type: CodingMolecularDiagnosticReport, + pub prior_diagnostic_report_type: MolecularDiagnosticReportCoding, #[serde(skip_serializing_if = "Option::is_none")] pub results: Option>, @@ -2445,8 +2581,8 @@ pub struct PriorDiagnosticReport { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingMolecularDiagnosticReport { - pub code: CodingMolecularDiagnosticReportCode, +pub struct MolecularDiagnosticReportCoding { + pub code: MolecularDiagnosticReportCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2461,7 +2597,7 @@ pub struct CodingMolecularDiagnosticReport { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingMolecularDiagnosticReportCode { +pub enum MolecularDiagnosticReportCodingCode { Array, Exome, @@ -2501,19 +2637,19 @@ pub struct Response { pub id: String, - pub method: CodingResponseMethod, + pub method: ResponseMethodCoding, pub patient: Reference, pub therapy: Reference, - pub value: CodingRecist, + pub value: RecistCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingResponseMethod { - pub code: CodingResponseMethodCode, +pub struct ResponseMethodCoding { + pub code: ResponseMethodCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2527,7 +2663,7 @@ pub struct CodingResponseMethod { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingResponseMethodCode { +pub enum ResponseMethodCodingCode { #[serde(rename = "RANO")] Rano, @@ -2537,8 +2673,8 @@ pub enum CodingResponseMethodCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingRecist { - pub code: CodingRecistCode, +pub struct RecistCoding { + pub code: RecistCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2552,7 +2688,7 @@ pub struct CodingRecist { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub enum CodingRecistCode { +pub enum RecistCodingCode { #[serde(rename = "CR")] Cr, @@ -2585,7 +2721,7 @@ pub struct TumorSpecimen { pub patient: Reference, #[serde(rename = "type")] - pub tumor_specimen_type: CodingTumorSpecimen, + pub tumor_specimen_type: TumorSpecimenCoding, } #[derive(Debug, Serialize, Deserialize)] @@ -2594,15 +2730,15 @@ pub struct Collection { #[serde(skip_serializing_if = "Option::is_none")] pub date: Option, - pub localization: CodingTumorSpecimenCollectionLocalization, + pub localization: TumorSpecimenCollectionLocalizationCoding, - pub method: CodingTumorSpecimenCollectionMethod, + pub method: TumorSpecimenCollectionMethodCoding, } #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTumorSpecimenCollectionLocalization { - pub code: CodingTumorSpecimenCollectionLocalizationCode, +pub struct TumorSpecimenCollectionLocalizationCoding { + pub code: TumorSpecimenCollectionLocalizationCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2617,7 +2753,7 @@ pub struct CodingTumorSpecimenCollectionLocalization { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingTumorSpecimenCollectionLocalizationCode { +pub enum TumorSpecimenCollectionLocalizationCodingCode { #[serde(rename = "cellfree-dna")] CellfreeDna, @@ -2637,8 +2773,8 @@ pub enum CodingTumorSpecimenCollectionLocalizationCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTumorSpecimenCollectionMethod { - pub code: CodingTumorSpecimenCollectionMethodCode, +pub struct TumorSpecimenCollectionMethodCoding { + pub code: TumorSpecimenCollectionMethodCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2653,7 +2789,7 @@ pub struct CodingTumorSpecimenCollectionMethod { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingTumorSpecimenCollectionMethodCode { +pub enum TumorSpecimenCollectionMethodCodingCode { Biopsy, Cytology, @@ -2668,8 +2804,8 @@ pub enum CodingTumorSpecimenCollectionMethodCode { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] -pub struct CodingTumorSpecimen { - pub code: CodingTumorSpecimenCode, +pub struct TumorSpecimenCoding { + pub code: TumorSpecimenCodingCode, #[serde(skip_serializing_if = "Option::is_none")] pub display: Option, @@ -2684,7 +2820,7 @@ pub struct CodingTumorSpecimen { #[derive(Debug, Serialize, Deserialize)] #[serde(deny_unknown_fields)] #[serde(rename_all = "kebab-case")] -pub enum CodingTumorSpecimenCode { +pub enum TumorSpecimenCodingCode { #[serde(rename = "cryo-frozen")] CryoFrozen, diff --git a/tests/mv64e-mtb-fake-patient.json b/tests/mv64e-mtb-fake-patient.json index c82d951..5895be5 100644 --- a/tests/mv64e-mtb-fake-patient.json +++ b/tests/mv64e-mtb-fake-patient.json @@ -1,2243 +1,2606 @@ { - "patient" : { - "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", - "gender" : { - "code" : "female", - "display" : "Weiblich", - "system" : "Gender" + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "gender": { + "code": "male", + "display": "Männlich", + "system": "Gender" }, - "birthDate" : "1956-02-25", - "dateOfDeath" : "2007-02-25", - "healthInsurance" : { - "type" : { - "code" : "GKV", - "display" : "gesetzliche Krankenversicherung", - "system" : "http://fhir.de/CodeSystem/versicherungsart-de-basis" + "birthDate": "1993-08-01", + "healthInsurance": { + "type": { + "code": "GKV", + "display": "gesetzliche Krankenversicherung", + "system": "http://fhir.de/CodeSystem/versicherungsart-de-basis" }, - "reference" : { - "id" : "1234567890", - "system" : "https://www.dguv.de/arge-ik", - "display" : "AOK", - "type" : "HealthInsurance" + "reference": { + "id": "1234567890", + "system": "https://www.dguv.de/arge-ik", + "display": "AOK", + "type": "HealthInsurance" } }, - "address" : { - "municipalityCode" : "12345" + "address": { + "municipalityCode": "12345" }, - "age" : { - "value" : 51, - "unit" : "Years" + "age": { + "value": 31, + "unit": "Years" }, - "vitalStatus" : { - "code" : "deceased", - "display" : "Verstorben", - "system" : "dnpm-dip/patient/vital-status" + "vitalStatus": { + "code": "alive", + "display": "Lebend", + "system": "dnpm-dip/patient/vital-status" } }, - "episodesOfCare" : [ { - "id" : "a95f44a6-5dbb-4acd-9d52-05db10f8410b", - "patient" : { - "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", - "type" : "Patient" + "episodesOfCare": [ + { + "id": "dc4d1b2c-7468-4a4a-8fbd-1b0bb645c082", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "period": { + "start": "2024-11-30" + }, + "diagnoses": [ + { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "type": "MTBDiagnosis" + } + ] + } + ], + "diagnoses": [ + { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "recordedOn": "2022-09-01", + "type": { + "history": [ + { + "value": { + "code": "main", + "display": "Hauptdiagnose", + "system": "dnpm-dip/mtb/diagnosis/type" + }, + "date": "2022-09-01" + } + ] + }, + "code": { + "code": "C57.0", + "display": "Bösartige Neubildung: Tuba uterina [Falloppio]", + "system": "http://fhir.de/CodeSystem/bfarm/icd-10-gm", + "version": "2025" + }, + "topography": { + "code": "C57.0", + "display": "Eileiter", + "system": "urn:oid:2.16.840.1.113883.6.43.1", + "version": "Zweite Revision" + }, + "grading": { + "history": [ + { + "date": "2022-09-01", + "codes": [ + { + "code": "4", + "display": "4 = undifferenziert", + "system": "https://www.basisdatensatz.de/feld/161/grading" + }, + { + "code": "1", + "display": "Pilocytic astrocytoma", + "system": "dnpm-dip/mtb/who-grading-cns-tumors", + "version": "2021" + } + ] + } + ] + }, + "staging": { + "history": [ + { + "date": "2022-09-01", + "method": { + "code": "clinical", + "display": "Klinisch", + "system": "dnpm-dip/mtb/tumor-staging/method" + }, + "tnmClassification": { + "tumor": { + "code": "T1", + "system": "UICC" + }, + "nodes": { + "code": "N3", + "system": "UICC" + }, + "metastasis": { + "code": "M0", + "system": "UICC" + } + }, + "otherClassifications": [ + { + "code": "local", + "display": "Lokal", + "system": "dnpm-dip/mtb/diagnosis/kds-tumor-spread" + } + ] + } + ] + }, + "guidelineTreatmentStatus": { + "code": "no-guidelines-available", + "display": "Keine Leitlinien vorhanden", + "system": "dnpm-dip/mtb/diagnosis/guideline-treatment-status" + }, + "notes": [ + "Notes on the tumor diagnosis..." + ] + } + ], + "guidelineTherapies": [ + { + "id": "b63bcd3e-1bbb-425d-bd4f-03820036e249", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "reason": { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "display": "Bösartige Neubildung: Tuba uterina [Falloppio]", + "type": "MTBDiagnosis" + }, + "therapyLine": 8, + "intent": { + "code": "X", + "display": "Keine Angabe", + "system": "dnpm-dip/therapy/intent" + }, + "category": { + "code": "S", + "display": "Sonstiges", + "system": "dnpm-dip/therapy/category" + }, + "recordedOn": "2025-05-30", + "status": { + "code": "stopped", + "display": "Abgebrochen", + "system": "dnpm-dip/therapy/status" + }, + "statusReason": { + "code": "progression", + "display": "Progression", + "system": "dnpm-dip/therapy/status-reason" + }, + "period": { + "start": "2024-05-30", + "end": "2024-08-22" + }, + "medication": [ + { + "code": "L01XX57", + "display": "Plitidepsin", + "system": "http://fhir.de/CodeSystem/bfarm/atc", + "version": "2025" + } + ], + "notes": [ + "Notes on the therapy..." + ] }, - "period" : { - "start" : "2024-10-03" - }, - "diagnoses" : [ { - "id" : "744bf622-ba4b-4e64-867c-0807847d9da4", - "type" : "MTBDiagnosis" - } ] - } ], - "diagnoses" : [ { - "id" : "744bf622-ba4b-4e64-867c-0807847d9da4", - "patient" : { - "id" : "63f8fd7b-8127-4f3c-8843-aa9199e21c29", - "type" : "Patient" - }, - "recordedOn" : "2004-01-25", - "type" : { - "history" : [ { - "value" : { - "code" : "main", - "display" : "Hauptdiagnose", - "system" : "dnpm-dip/mtb/diagnosis/type" + { + "id": "d7de61c1-a5cc-429b-9c6f-e47765828f90", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "reason": { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "display": "Bösartige Neubildung: Tuba uterina [Falloppio]", + "type": "MTBDiagnosis" + }, + "therapyLine": 5, + "intent": { + "code": "P", + "display": "Palliativ", + "system": "dnpm-dip/therapy/intent" + }, + "category": { + "code": "S", + "display": "Sonstiges", + "system": "dnpm-dip/therapy/category" + }, + "recordedOn": "2025-05-30", + "status": { + "code": "stopped", + "display": "Abgebrochen", + "system": "dnpm-dip/therapy/status" + }, + "statusReason": { + "code": "progression", + "display": "Progression", + "system": "dnpm-dip/therapy/status-reason" + }, + "period": { + "start": "2024-02-29", + "end": "2024-10-03" + }, + "medication": [ + { + "code": "L01XX29", + "display": "Denileukindiftitox", + "system": "http://fhir.de/CodeSystem/bfarm/atc", + "version": "2025" + } + ], + "notes": [ + "Notes on the therapy..." + ] + } + ], + "guidelineProcedures": [ + { + "id": "960c989f-12f0-4592-96a8-fcb55938cd38", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "reason": { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "display": "Bösartige Neubildung: Tuba uterina [Falloppio]", + "type": "MTBDiagnosis" + }, + "therapyLine": 3, + "intent": { + "code": "X", + "display": "Keine Angabe", + "system": "dnpm-dip/therapy/intent" + }, + "code": { + "code": "surgery", + "display": "OP", + "system": "dnpm-dip/mtb/procedure/type" + }, + "status": { + "code": "on-going", + "display": "Laufend", + "system": "dnpm-dip/therapy/status" + }, + "statusReason": { + "code": "payment-pending", + "display": "Kostenübernahme noch ausstehend", + "system": "dnpm-dip/therapy/status-reason" + }, + "recordedOn": "2025-05-30", + "period": { + "start": "2024-11-30" + }, + "notes": [ + "Notes on the therapeutic procedure..." + ] + } + ], + "performanceStatus": [ + { + "id": "2d5108a3-600c-4153-8600-0427ad00d8a9", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "effectiveDate": "2025-05-30", + "value": { + "code": "5", + "display": "ECOG 5", + "system": "ECOG-Performance-Status" + } + } + ], + "specimens": [ + { + "id": "c59253e3-3c11-40bd-bc35-7c089f734862", + "patient": { + "id": "e14bf9b6-7982-4933-a648-cfdea6484f1c", + "type": "Patient" + }, + "diagnosis": { + "id": "53155bb3-39f8-4cd9-aa9b-1675165bfdb8", + "type": "MTBDiagnosis" + }, + "type": { + "code": "unknown", + "display": "Unbekannt", + "system": "dnpm-dip/mtb/tumor-specimen/type" + }, + "collection": { + "date": "2025-05-30", + "method": { + "code": "unknown", + "display": "Unbekannt", + "system": "dnpm-dip/mtb/tumor-specimen/collection/method" }, - "date" : "2004-01-25" - } ] - }, - "code" : { - "code" : "C69.0", - "display" : "Bösartige Neubildung: Konjunktiva", - "system" : "http://fhir.de/CodeSystem/bfarm/icd-10-gm", - "version" : "2025" - 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