@metriport/fhir-sdk 1.2.7 → 1.3.1

package/README.md

@@ -67,6 +67,170 @@ console.log(result.hasBrokenReferences); // true if at least one broken referenc
 console.log(result.brokenReferences); // All broken references in bundle
 ```
 
+### 5. Reverse Reference Lookup
+
+Find all resources that reference a given resource (reverse lookup). This is useful for discovering what refers to a specific resource.
+
+```typescript
+const patient = sdk.getPatientById("patient-123");
+
+// Find all resources that reference this patient
+const referencingResources = sdk.getResourcesReferencingId("patient-123");
+console.log(referencingResources); // [Observation, Encounter, DiagnosticReport, ...]
+
+// Filter by resource type
+const observations = sdk.getResourcesReferencingId("patient-123", {
+  resourceType: "Observation",
+});
+
+// Filter by reference field
+const subjectReferences = sdk.getResourcesReferencingId("patient-123", {
+  referenceField: "subject",
+});
+
+// Use smart resource method
+const backRefs = patient.getReferencingResources();
+const encounteredObs = patient.getReferencingResources({
+  resourceType: "Observation",
+  referenceField: "subject",
+});
+```
+
+**Key Features:**
+
+- **O(1) lookup** - constant time performance
+- **Flexible filtering** - by resource type and/or reference field
+- **Smart resources** - returns fully functional Smart resources
+- **Bi-directional** - complements forward reference navigation
+
+### 6. Date Range Search
+
+Search for resources by date range using an interval tree index. This is useful for filtering resources by clinical dates efficiently.
+
+```typescript
+const sdk = await FhirBundleSdk.create(bundle);
+
+// Basic date range search
+const results = sdk.searchByDateRange({
+  dateFrom: "2024-01-01",
+  dateTo: "2024-01-31",
+});
+
+// Filter by resource type
+const observations = sdk.searchByDateRange({
+  dateFrom: "2024-01-01",
+  dateTo: "2024-12-31",
+  resourceTypes: ["Observation", "Condition"],
+});
+
+// Filter by specific date field
+const recordedConditions = sdk.searchByDateRange({
+  dateFrom: "2024-01-01",
+  dateTo: "2024-12-31",
+  dateFields: ["recordedDate"],
+});
+
+// Use Date objects
+const recentResources = sdk.searchByDateRange({
+  dateFrom: new Date("2024-01-01"),
+  dateTo: new Date(),
+});
+```
+
+**Key Features:**
+
+- **O(log n + k) search** - efficient interval tree-based search where k is the number of matching resources
+- **Multiple date fields** - indexes primary clinical dates (effectiveDateTime, onset, performed) and recorded dates
+- **Flexible filtering** - by resource type and/or specific date fields
+- **Smart resources** - returns fully functional Smart resources
+- **Period support** - handles both single date fields and date periods/ranges
+
+**Indexed Resource Types:**
+
+The following resource types and date fields are automatically indexed:
+
+- **Observation**: effectiveDateTime, effectivePeriod, effectiveInstant, issued
+- **Condition**: onsetDateTime, onsetPeriod, abatementDateTime, abatementPeriod, recordedDate
+- **Encounter**: period
+- **Procedure**: performedDateTime, performedPeriod
+- **Immunization**: occurrenceDateTime, recorded
+- **DiagnosticReport**: effectiveDateTime, effectivePeriod, issued
+- **MedicationRequest**: authoredOn
+- **MedicationAdministration**: effectiveDateTime, effectivePeriod
+- **MedicationStatement**: effectiveDateTime, effectivePeriod
+- **MedicationDispense**: whenHandedOver, whenPrepared
+- **DocumentReference**: date, context.period
+- **Composition**: date
+- **Coverage**: period
+- **AllergyIntolerance**: onsetDateTime, onsetPeriod, lastOccurrence, recordedDate
+
+### 7. Reference Walking (BFS Traversal)
+
+Walk the reference graph starting from any resource using breadth-first search (BFS). This is useful for discovering all resources connected to a specific resource.
+
+```typescript
+const observation = sdk.getObservationById("obs-123");
+
+// Walk all reachable resources
+const result = sdk.walkReferences(observation);
+console.log(result.allResources); // All resources reachable from observation
+console.log(result.resourcesByDepth); // Resources organized by depth level
+console.log(result.depthReached); // Maximum depth traversed
+
+// Limit traversal depth
+const limitedResult = sdk.walkReferences(observation, { maxDepth: 2 });
+
+// Exclude the start resource from results
+const withoutStart = sdk.walkReferences(observation, { includeStartResource: false });
+```
+
+### 7. LLM Context Generation
+
+Generate comprehensive, LLM-friendly context from a resource and its related resources. This automatically performs BFS traversal, strips non-clinical metadata, and formats the output for optimal LLM consumption.
+
+```typescript
+const observation = sdk.getObservationById("obs-123");
+
+// Generate structured text context (default, best for LLMs)
+const llmContext = sdk.generateLLMContext(observation, {
+  maxDepth: 2, // Default: 2
+  format: "structured-text", // Default: 'structured-text'
+});
+
+// Send to your LLM
+await llm.chat({
+  messages: [
+    { role: "system", content: "You are a medical data analyst." },
+    { role: "user", content: `Analyze this patient data:\n\n${llmContext}` },
+  ],
+});
+
+// Alternative: JSON format
+const jsonContext = sdk.generateLLMContext(observation, {
+  format: "json",
+});
+```
+
+**Features:**
+
+- Automatically discovers all related resources via BFS traversal
+- Strips non-clinical metadata (`meta`, `extension`, `text`) to reduce tokens by ~30-40%
+- Organizes resources hierarchically (primary → directly referenced → indirectly referenced)
+- Groups resources by type within each depth level
+- Logs resource counts for debugging (not included in output)
+
+**Static Helper:**
+
+You can also strip non-clinical data from any resource independently:
+
+```typescript
+import { FhirBundleSdk } from "@metriport/fhir-sdk";
+
+const cleanedPatient = FhirBundleSdk.stripNonClinicalData(patient);
+// Removes: meta, extension, modifierExtension, text
+// Returns immutable copy
+```
+
 ## Example Use Cases
 
 ### Patient Summary
@@ -91,6 +255,28 @@ const buildPatientSummary = (patientId: string) => {
 const orgName = sdk.getPatients()[0]?.getManagingOrganization()?.name;
 ```
 
+### Extract Related Resources
+
+```typescript
+// Get all resources related to a specific observation
+const extractRelatedResources = (observationId: string) => {
+  const observation = sdk.getObservationById(observationId);
+  if (!observation) return null;
+
+  // Walk the graph to find all related resources up to 2 levels deep
+  const result = sdk.walkReferences(observation, { maxDepth: 2 });
+
+  return {
+    observation,
+    relatedResourceCount: result.allResources.length,
+    resourcesByType: result.allResources.reduce((acc, resource) => {
+      acc[resource.resourceType] = (acc[resource.resourceType] || 0) + 1;
+      return acc;
+    }, {} as Record<string, number>),
+  };
+};
+```
+
 ### Example Use Case: Processing a bundle
 
 ```typescript
@@ -122,3 +308,24 @@ const processBundle = async (bundle: Bundle) => {
 - **getById**: O(1) lookup
 - **getByType**: O(n) where n = resources of that type
 - **Reference resolution**: O(1) traversal
+- **Reverse reference lookup**: O(1) lookup
+
+## Demo
+
+To see reverse reference functionality in action, run:
+
+```bash
+# From the utils package
+cd packages/utils
+npx ts-node src/fhir-sdk/demo-reverse-references.ts --bundle-path /path/to/your/bundle.json
+```
+
+The demo will:
+
+- Automatically find the first patient in your bundle
+- Showcase all reverse reference capabilities:
+  - Finding all resources that reference a specific resource
+  - Filtering by resource type and reference field
+  - Using smart resource methods
+  - Bi-directional navigation
+  - Performance characteristics

package/dist/__tests__/clinical-dates.test.d.ts

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=clinical-dates.test.d.ts.map

package/dist/__tests__/clinical-dates.test.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"clinical-dates.test.d.ts","sourceRoot":"","sources":["../../src/__tests__/clinical-dates.test.ts"],"names":[],"mappings":""}

package/dist/__tests__/clinical-dates.test.js

@@ -0,0 +1,341 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+const clinical_dates_1 = require("../clinical-dates");
+describe("getClinicalDateRange", () => {
+    describe("Observation", () => {
+        it("returns effectiveDateTime as primary date", () => {
+            const observation = {
+                resourceType: "Observation",
+                id: "obs-1",
+                status: "final",
+                code: { text: "Test" },
+                effectiveDateTime: "2023-05-15T10:30:00Z",
+                issued: "2023-05-16T08:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(observation);
+            expect(result).toEqual({
+                startDate: "2023-05-15T10:30:00Z",
+            });
+        });
+        it("returns effectivePeriod when effectiveDateTime not present", () => {
+            const observation = {
+                resourceType: "Observation",
+                id: "obs-2",
+                status: "final",
+                code: { text: "Test" },
+                effectivePeriod: {
+                    start: "2023-05-10T00:00:00Z",
+                    end: "2023-05-15T00:00:00Z",
+                },
+                issued: "2023-05-16T08:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(observation);
+            expect(result).toEqual({
+                startDate: "2023-05-10T00:00:00Z",
+                endDate: "2023-05-15T00:00:00Z",
+            });
+        });
+        it("returns effectivePeriod with only end date", () => {
+            const observation = {
+                resourceType: "Observation",
+                id: "obs-3",
+                status: "final",
+                code: { text: "Test" },
+                effectivePeriod: {
+                    end: "2023-05-15T00:00:00Z",
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(observation);
+            expect(result).toEqual({
+                startDate: "2023-05-15T00:00:00Z",
+                endDate: "2023-05-15T00:00:00Z",
+            });
+        });
+        it("returns issued when no effective date", () => {
+            const observation = {
+                resourceType: "Observation",
+                id: "obs-4",
+                status: "final",
+                code: { text: "Test" },
+                issued: "2023-05-16T08:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(observation);
+            expect(result).toEqual({
+                startDate: "2023-05-16T08:00:00Z",
+            });
+        });
+        it("returns undefined when no dates present", () => {
+            const observation = {
+                resourceType: "Observation",
+                id: "obs-5",
+                status: "final",
+                code: { text: "Test" },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(observation);
+            expect(result).toBeUndefined();
+        });
+    });
+    describe("Condition", () => {
+        it("returns onsetDateTime as primary date", () => {
+            const condition = {
+                resourceType: "Condition",
+                id: "cond-1",
+                subject: { reference: "Patient/1" },
+                onsetDateTime: "2023-01-15T00:00:00Z",
+                recordedDate: "2023-01-20T00:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(condition);
+            expect(result).toEqual({
+                startDate: "2023-01-15T00:00:00Z",
+            });
+        });
+        it("returns onsetPeriod when onsetDateTime not present", () => {
+            const condition = {
+                resourceType: "Condition",
+                id: "cond-2",
+                subject: { reference: "Patient/1" },
+                onsetPeriod: {
+                    start: "2023-01-01T00:00:00Z",
+                    end: "2023-01-31T00:00:00Z",
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(condition);
+            expect(result).toEqual({
+                startDate: "2023-01-01T00:00:00Z",
+                endDate: "2023-01-31T00:00:00Z",
+            });
+        });
+        it("returns recordedDate as fallback", () => {
+            const condition = {
+                resourceType: "Condition",
+                id: "cond-3",
+                subject: { reference: "Patient/1" },
+                recordedDate: "2023-01-20T00:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(condition);
+            expect(result).toEqual({
+                startDate: "2023-01-20T00:00:00Z",
+            });
+        });
+    });
+    describe("Procedure", () => {
+        it("returns performedDateTime as primary date", () => {
+            const procedure = {
+                resourceType: "Procedure",
+                id: "proc-1",
+                status: "completed",
+                subject: { reference: "Patient/1" },
+                performedDateTime: "2023-03-10T14:30:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(procedure);
+            expect(result).toEqual({
+                startDate: "2023-03-10T14:30:00Z",
+            });
+        });
+        it("returns performedPeriod when performedDateTime not present", () => {
+            const procedure = {
+                resourceType: "Procedure",
+                id: "proc-2",
+                status: "completed",
+                subject: { reference: "Patient/1" },
+                performedPeriod: {
+                    start: "2023-03-10T14:00:00Z",
+                    end: "2023-03-10T16:00:00Z",
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(procedure);
+            expect(result).toEqual({
+                startDate: "2023-03-10T14:00:00Z",
+                endDate: "2023-03-10T16:00:00Z",
+            });
+        });
+    });
+    describe("Encounter", () => {
+        it("returns period as primary date", () => {
+            const encounter = {
+                resourceType: "Encounter",
+                id: "enc-1",
+                status: "finished",
+                class: { code: "AMB" },
+                period: {
+                    start: "2023-04-01T09:00:00Z",
+                    end: "2023-04-01T10:00:00Z",
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(encounter);
+            expect(result).toEqual({
+                startDate: "2023-04-01T09:00:00Z",
+                endDate: "2023-04-01T10:00:00Z",
+            });
+        });
+        it("returns undefined when no period", () => {
+            const encounter = {
+                resourceType: "Encounter",
+                id: "enc-2",
+                status: "finished",
+                class: { code: "AMB" },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(encounter);
+            expect(result).toBeUndefined();
+        });
+    });
+    describe("AllergyIntolerance", () => {
+        it("returns onsetDateTime as primary date", () => {
+            const allergy = {
+                resourceType: "AllergyIntolerance",
+                id: "allergy-1",
+                patient: { reference: "Patient/1" },
+                onsetDateTime: "2022-06-15T00:00:00Z",
+                recordedDate: "2022-06-20T00:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(allergy);
+            expect(result).toEqual({
+                startDate: "2022-06-15T00:00:00Z",
+            });
+        });
+    });
+    describe("DiagnosticReport", () => {
+        it("returns effectiveDateTime as primary date", () => {
+            const report = {
+                resourceType: "DiagnosticReport",
+                id: "report-1",
+                status: "final",
+                code: { text: "Lab Report" },
+                effectiveDateTime: "2023-07-10T08:00:00Z",
+                issued: "2023-07-11T10:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(report);
+            expect(result).toEqual({
+                startDate: "2023-07-10T08:00:00Z",
+            });
+        });
+    });
+    describe("MedicationRequest", () => {
+        it("returns authoredOn as primary date", () => {
+            const medRequest = {
+                resourceType: "MedicationRequest",
+                id: "med-1",
+                status: "active",
+                intent: "order",
+                subject: { reference: "Patient/1" },
+                authoredOn: "2023-08-05T12:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(medRequest);
+            expect(result).toEqual({
+                startDate: "2023-08-05T12:00:00Z",
+            });
+        });
+    });
+    describe("Immunization", () => {
+        it("returns occurrenceDateTime as primary date", () => {
+            const immunization = {
+                resourceType: "Immunization",
+                id: "imm-1",
+                status: "completed",
+                vaccineCode: { text: "Flu vaccine" },
+                patient: { reference: "Patient/1" },
+                occurrenceDateTime: "2023-09-15T10:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(immunization);
+            expect(result).toEqual({
+                startDate: "2023-09-15T10:00:00Z",
+            });
+        });
+        it("returns recorded when occurrenceDateTime not present", () => {
+            const immunization = {
+                resourceType: "Immunization",
+                id: "imm-2",
+                status: "completed",
+                vaccineCode: { text: "Flu vaccine" },
+                patient: { reference: "Patient/1" },
+                recorded: "2023-09-16T08:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(immunization);
+            expect(result).toEqual({
+                startDate: "2023-09-16T08:00:00Z",
+            });
+        });
+    });
+    describe("DocumentReference", () => {
+        it("returns date as primary date", () => {
+            const doc = {
+                resourceType: "DocumentReference",
+                id: "doc-1",
+                status: "current",
+                content: [],
+                date: "2023-10-01T00:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(doc);
+            expect(result).toEqual({
+                startDate: "2023-10-01T00:00:00Z",
+            });
+        });
+        it("returns context period when date not present", () => {
+            const doc = {
+                resourceType: "DocumentReference",
+                id: "doc-2",
+                status: "current",
+                content: [],
+                context: {
+                    period: {
+                        start: "2023-09-01T00:00:00Z",
+                        end: "2023-09-30T00:00:00Z",
+                    },
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(doc);
+            expect(result).toEqual({
+                startDate: "2023-09-01T00:00:00Z",
+                endDate: "2023-09-30T00:00:00Z",
+            });
+        });
+    });
+    describe("Composition", () => {
+        it("returns date as primary date", () => {
+            const composition = {
+                resourceType: "Composition",
+                id: "comp-1",
+                status: "final",
+                type: { text: "Clinical Note" },
+                author: [{ reference: "Practitioner/1" }],
+                title: "Note",
+                date: "2023-11-01T00:00:00Z",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(composition);
+            expect(result).toEqual({
+                startDate: "2023-11-01T00:00:00Z",
+            });
+        });
+    });
+    describe("Coverage", () => {
+        it("returns period as primary date", () => {
+            const coverage = {
+                resourceType: "Coverage",
+                id: "cov-1",
+                status: "active",
+                beneficiary: { reference: "Patient/1" },
+                payor: [{ reference: "Organization/1" }],
+                period: {
+                    start: "2023-01-01T00:00:00Z",
+                    end: "2023-12-31T23:59:59Z",
+                },
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(coverage);
+            expect(result).toEqual({
+                startDate: "2023-01-01T00:00:00Z",
+                endDate: "2023-12-31T23:59:59Z",
+            });
+        });
+    });
+    describe("unsupported resource types", () => {
+        it("returns undefined for Patient", () => {
+            const patient = {
+                resourceType: "Patient",
+                id: "pat-1",
+            };
+            const result = (0, clinical_dates_1.getClinicalDateRange)(patient);
+            expect(result).toBeUndefined();
+        });
+    });
+});
+//# sourceMappingURL=clinical-dates.test.js.map

package/dist/__tests__/clinical-dates.test.js.map

@@ -0,0 +1 @@
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package/dist/__tests__/date-range-performance.test.d.ts

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=date-range-performance.test.d.ts.map

package/dist/__tests__/date-range-performance.test.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"date-range-performance.test.d.ts","sourceRoot":"","sources":["../../src/__tests__/date-range-performance.test.ts"],"names":[],"mappings":""}