name: fhir-developer-skill
description: >
FHIR API development guide for building healthcare endpoints. Use when: (1) Creating
FHIR REST endpoints (Patient, Observation, Encounter, Condition, MedicationRequest),
(2) Validating FHIR resources and returning proper HTTP status codes and error responses,
(3) Implementing SMART on FHIR authorization and OAuth scopes, (4) Working with Bundles,
transactions, batch operations, or search pagination. Covers FHIR R4 resource structures,
required fields, value sets (status codes, gender, intent), coding systems (LOINC, SNOMED,
RxNorm, ICD-10), and OperationOutcome error handling.

FHIR Developer Skill

Quick Reference

HTTP Status Codes

Required Fields by Resource (FHIR R4)

Required vs Optional Fields (CRITICAL)

Only validate fields with cardinality starting with "1" as required.

Common mistake: Making subject or period required on Encounter. They are 0..1 (optional).

Value Sets (Enum Values)

Invalid enum values must return 422 Unprocessable Entity.

Patient.gender

male | female | other | unknown

Observation.status

registered | preliminary | final | amended | corrected | cancelled | entered-in-error | unknown

Encounter.status

planned | arrived | triaged | in-progress | onleave | finished | cancelled | entered-in-error | unknown

Encounter.class (Common Codes)

Condition.clinicalStatus

active | recurrence | relapse | inactive | remission | resolved

Condition.verificationStatus

unconfirmed | provisional | differential | confirmed | refuted | entered-in-error

MedicationRequest.status

active | on-hold | cancelled | completed | entered-in-error | stopped | draft | unknown

MedicationRequest.intent

proposal | plan | order | original-order | reflex-order | filler-order | instance-order | option

Bundle.type

document | message | transaction | transaction-response | batch | batch-response | history | searchset | collection

Validation Pattern

Python/FastAPI:

from fastapi import FastAPI
from fastapi.responses import JSONResponse

app = FastAPI()

def operation_outcome(severity: str, code: str, diagnostics: str):
    return {
        "resourceType": "OperationOutcome",
        "issue": [{"severity": severity, "code": code, "diagnostics": diagnostics}]
    }

VALID_OBS_STATUS = {"registered", "preliminary", "final", "amended",
                    "corrected", "cancelled", "entered-in-error", "unknown"}

@app.post("/Observation", status_code=201)
async def create_observation(data: dict):
    if not data.get("status"):
        return JSONResponse(status_code=422, content=operation_outcome(
            "error", "required", "Observation.status is required"
        ), media_type="application/fhir+json")

    if data["status"] not in VALID_OBS_STATUS:
        return JSONResponse(status_code=422, content=operation_outcome(
            "error", "value", f"Invalid status '{data['status']}'"
        ), media_type="application/fhir+json")
    # ... create resource

TypeScript/Express:

const VALID_OBS_STATUS = new Set(['registered', 'preliminary', 'final', 'amended',
  'corrected', 'cancelled', 'entered-in-error', 'unknown']);

app.post('/Observation', (req, res) => {
  if (!req.body.status) {
    return res.status(422).contentType('application/fhir+json')
      .json(operationOutcome('error', 'required', 'Observation.status is required'));
  }
  if (!VALID_OBS_STATUS.has(req.body.status)) {
    return res.status(422).contentType('application/fhir+json')
      .json(operationOutcome('error', 'value', `Invalid status '${req.body.status}'`));
  }
  // ... create resource
});

Pydantic v2 Models (use Literal, not const=True):

from typing import Literal
from pydantic import BaseModel

class Patient(BaseModel):
    resourceType: Literal["Patient"] = "Patient"
    id: str | None = None
    gender: Literal["male", "female", "other", "unknown"] | None = None

Coding Systems (URLs)

Common LOINC Codes (Vital Signs)

Data Type Patterns

Coding (direct) vs CodeableConcept (wrapped)

Coding - Used by Encounter.class:

{"system": "http://terminology.hl7.org/CodeSystem/v3-ActCode", "code": "AMB"}

CodeableConcept - Used by Observation.code, Condition.code:

{"coding": [{"system": "http://loinc.org", "code": "8480-6"}], "text": "Systolic BP"}

Reference

{"reference": "Patient/123", "display": "John Smith"}

Identifier

{"system": "http://hospital.example.org/mrn", "value": "12345"}

Common Mistakes

Resource Structures

For complete JSON examples of all resources, see references/resource-examples.md.

Quick reference for error responses:

{
  "resourceType": "OperationOutcome",
  "issue": [{"severity": "error", "code": "not-found", "diagnostics": "Patient/123 not found"}]
}

RESTful Endpoints

POST   /[ResourceType]              # Create (returns 201 + Location header)
GET    /[ResourceType]/[id]         # Read
PUT    /[ResourceType]/[id]         # Update
DELETE /[ResourceType]/[id]         # Delete (returns 204)
GET    /[ResourceType]?param=value  # Search (returns Bundle)
GET    /metadata                    # CapabilityStatement
POST   /                            # Bundle transaction/batch

Conditional Operations

If-Match (optimistic locking):
- Client sends: If-Match: W/"1"
- Mismatch returns 412 Precondition Failed

If-None-Exist (conditional create):
- Client sends: If-None-Exist: identifier=http://mrn|12345
- Match exists: return existing (200)
- No match: create new (201)

Reference Files

For detailed guidance, see:

• Resource Examples: Complete JSON structures for Patient, Observation, Encounter, Condition, MedicationRequest, OperationOutcome, CapabilityStatement
• SMART on FHIR Authorization: OAuth flows, scope syntax (v1/v2), backend services, scope enforcement
• Pagination: Search result pagination, _count/_offset parameters, link relations
• Bundle Operations: Transaction vs batch semantics, atomicity, processing order

Implementation Checklist

1. Set Content-Type: application/fhir+json on all responses
2. Return meta.versionId and meta.lastUpdated on resources
3. Return Location header on create: /Patient/{id}
4. Return ETag header: W/"{versionId}"
5. Use OperationOutcome for all error responses
6. Validate required fields → 422 for missing
7. Validate enum values → 422 for invalid
8. Search returns Bundle with type: "searchset"

Quick Start Script

To scaffold a new FHIR API project with correct Pydantic v2 patterns:

python scripts/setup_fhir_project.py my_fhir_api

Creates a FastAPI project with correct models, OperationOutcome helpers, and Patient CRUD endpoints.