@precisa-saude/fhir 0.10.0 → 0.11.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (38) hide show
  1. package/README.md +28 -10
  2. package/dist/biomarkers.cjs +2 -2
  3. package/dist/biomarkers.js +1 -1
  4. package/dist/{chunk-S6VJHXJF.js → chunk-4YQOKZX7.js} +2 -2
  5. package/dist/{chunk-2EVQ2ESB.cjs → chunk-EW5GLFSC.cjs} +205 -1
  6. package/dist/chunk-EW5GLFSC.cjs.map +1 -0
  7. package/dist/{chunk-I6H35QXI.js → chunk-ICSMWCVT.js} +205 -1
  8. package/dist/{chunk-I6H35QXI.js.map → chunk-ICSMWCVT.js.map} +1 -1
  9. package/dist/{chunk-O25F6G3K.cjs → chunk-NOJRDKFO.cjs} +4 -4
  10. package/dist/{chunk-O25F6G3K.cjs.map → chunk-NOJRDKFO.cjs.map} +1 -1
  11. package/dist/{chunk-N6J26FVW.js → chunk-NR4OTNC4.js} +2 -2
  12. package/dist/{chunk-PJJVDGX4.cjs → chunk-OPS7XHIL.cjs} +3 -3
  13. package/dist/{chunk-PJJVDGX4.cjs.map → chunk-OPS7XHIL.cjs.map} +1 -1
  14. package/dist/{chunk-D6XKCRS2.cjs → chunk-T22Q6ML7.cjs} +203 -82
  15. package/dist/chunk-T22Q6ML7.cjs.map +1 -0
  16. package/dist/{chunk-GTKRPCZB.js → chunk-WTAXN4BF.js} +203 -82
  17. package/dist/chunk-WTAXN4BF.js.map +1 -0
  18. package/dist/cli.js +407 -82
  19. package/dist/converter.cjs +3 -3
  20. package/dist/converter.js +2 -2
  21. package/dist/importer.cjs +3 -3
  22. package/dist/importer.js +2 -2
  23. package/dist/index.cjs +85 -6
  24. package/dist/index.cjs.map +1 -1
  25. package/dist/index.d.cts +34 -2
  26. package/dist/index.d.ts +34 -2
  27. package/dist/index.js +83 -4
  28. package/dist/index.js.map +1 -1
  29. package/dist/reference-ranges.cjs +2 -2
  30. package/dist/reference-ranges.d.cts +38 -3
  31. package/dist/reference-ranges.d.ts +38 -3
  32. package/dist/reference-ranges.js +1 -1
  33. package/package.json +1 -1
  34. package/dist/chunk-2EVQ2ESB.cjs.map +0 -1
  35. package/dist/chunk-D6XKCRS2.cjs.map +0 -1
  36. package/dist/chunk-GTKRPCZB.js.map +0 -1
  37. /package/dist/{chunk-S6VJHXJF.js.map → chunk-4YQOKZX7.js.map} +0 -0
  38. /package/dist/{chunk-N6J26FVW.js.map → chunk-NR4OTNC4.js.map} +0 -0
@@ -1,7 +1,7 @@
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  "use strict";Object.defineProperty(exports, "__esModule", {value: true}); function _optionalChain(ops) { let lastAccessLHS = undefined; let value = ops[0]; let i = 1; while (i < ops.length) { const op = ops[i]; const fn = ops[i + 1]; i += 2; if ((op === 'optionalAccess' || op === 'optionalCall') && value == null) { return undefined; } if (op === 'access' || op === 'optionalAccess') { lastAccessLHS = value; value = fn(value); } else if (op === 'call' || op === 'optionalCall') { value = fn((...args) => value.call(lastAccessLHS, ...args)); lastAccessLHS = undefined; } } return value; }
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- var _chunk2EVQ2ESBcjs = require('./chunk-2EVQ2ESB.cjs');
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+ var _chunkEW5GLFSCcjs = require('./chunk-EW5GLFSC.cjs');
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  var _chunk3ILBFLVQcjs = require('./chunk-3ILBFLVQ.cjs');
@@ -51,7 +51,7 @@ function mapFHIRObservationToInternal(observation, index) {
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  }
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  };
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  }
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- const internalCode = _chunk2EVQ2ESBcjs.loincToCode.call(void 0, loincCode);
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+ const internalCode = _chunkEW5GLFSCcjs.loincToCode.call(void 0, loincCode);
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  if (!internalCode) {
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  return {
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  skipped: {
@@ -62,7 +62,7 @@ function mapFHIRObservationToInternal(observation, index) {
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  }
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  };
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  }
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- const definition = _chunk2EVQ2ESBcjs.getDefinitionByLoinc.call(void 0, loincCode);
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+ const definition = _chunkEW5GLFSCcjs.getDefinitionByLoinc.call(void 0, loincCode);
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  let value;
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  let unit = "";
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  let isQualitative = false;
@@ -150,4 +150,4 @@ function processImportBundle(data) {
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  exports.MAX_OBSERVATIONS = MAX_OBSERVATIONS; exports.MAX_FILE_SIZE = MAX_FILE_SIZE; exports.extractObservationsFromBundle = extractObservationsFromBundle; exports.mapFHIRObservationToInternal = mapFHIRObservationToInternal; exports.processImportBundle = processImportBundle;
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- //# sourceMappingURL=chunk-O25F6G3K.cjs.map
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+ //# sourceMappingURL=chunk-NOJRDKFO.cjs.map
@@ -1 +1 @@
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// 5MB\n\n/**\n * Extract LOINC code from an Observation's code.coding array\n */\nfunction extractLoincCode(observation: FHIRObservation): string | undefined {\n if (!observation.code?.coding) return undefined;\n const loincCoding = observation.code.coding.find((c) => c.system === 'http://loinc.org');\n return loincCoding?.code;\n}\n\n/**\n * Extract interpretation flag from Observation\n */\nfunction extractFlag(observation: FHIRObservation): 'H' | 'L' | '' {\n const code = observation.interpretation?.[0]?.coding?.[0]?.code;\n if (code === 'H' || code === 'HH') return 'H';\n if (code === 'L' || code === 'LL') return 'L';\n return '';\n}\n\n/**\n * Extract Observation resources from a FHIR Bundle\n */\nexport function extractObservationsFromBundle(bundle: FHIRBundle): {\n observations: FHIRObservation[];\n skipped: SkippedEntry[];\n} {\n const observations: FHIRObservation[] = [];\n const skipped: SkippedEntry[] = [];\n\n for (let i = 0; i < bundle.entry.length; i++) {\n const entry = bundle.entry[i]!;\n if (!entry.resource) {\n skipped.push({ index: i, reason: 'Entry has no resource' });\n continue;\n }\n\n if (entry.resource.resourceType !== 'Observation') {\n // Non-observation resources are silently skipped (Patient, DiagnosticReport, etc.)\n continue;\n }\n\n if (observations.length >= MAX_OBSERVATIONS) {\n skipped.push({ index: i, reason: `Maximum of ${MAX_OBSERVATIONS} observations exceeded` });\n continue;\n }\n\n observations.push(entry.resource as FHIRObservation);\n }\n\n return { observations, skipped };\n}\n\n/**\n * Map a FHIR Observation to internal format using LOINC→biomarker code lookup\n */\nexport function mapFHIRObservationToInternal(\n observation: FHIRObservation,\n index: number,\n): { observation: ImportedObservation } | { skipped: SkippedEntry } {\n const loincCode = extractLoincCode(observation);\n\n if (!loincCode) {\n return {\n skipped: {\n index,\n reason: 'No LOINC code found in observation coding',\n resourceType: 'Observation',\n },\n };\n }\n\n const internalCode = loincToCode(loincCode);\n if (!internalCode) {\n return {\n skipped: {\n index,\n loincCode,\n reason: `Unknown LOINC code: ${loincCode}`,\n resourceType: 'Observation',\n },\n };\n }\n\n const definition = getDefinitionByLoinc(loincCode);\n\n // Extract value\n let value: number | string;\n let unit = '';\n let isQualitative = false;\n\n if (observation.valueQuantity?.value !== undefined) {\n value = observation.valueQuantity.value;\n unit = observation.valueQuantity.unit || observation.valueQuantity.code || '';\n } else if (observation.valueString) {\n value = observation.valueString;\n isQualitative = true;\n } else {\n return {\n skipped: {\n index,\n loincCode,\n reason: 'Observation has no value (valueQuantity or valueString)',\n resourceType: 'Observation',\n },\n };\n }\n\n // Extract collection date (effectiveDateTime or effectivePeriod.start)\n const collectionDate = observation.effectiveDateTime || observation.effectivePeriod?.start || '';\n if (!collectionDate) {\n return {\n skipped: {\n index,\n loincCode,\n reason: 'Observation has no effectiveDateTime or effectivePeriod.start',\n resourceType: 'Observation',\n },\n };\n }\n\n // Extract reference ranges\n let referenceMin: number | undefined;\n let referenceMax: number | undefined;\n if (observation.referenceRange?.[0]) {\n referenceMin = observation.referenceRange[0].low?.value;\n referenceMax = observation.referenceRange[0].high?.value;\n }\n\n const imported: ImportedObservation = {\n biomarkerCode: internalCode,\n biomarkerName:\n definition?.names.pt[0] || definition?.names.en[0] || observation.code.text || internalCode,\n collectionDate,\n flag: extractFlag(observation),\n isQualitative,\n loincCode,\n referenceMax,\n referenceMin,\n unit: unit || definition?.unit || '',\n value,\n };\n\n return { observation: imported };\n}\n\n/**\n * Process a complete FHIR Bundle for import\n */\nexport function processImportBundle(data: unknown): FHIRImportResult {\n // Structural validation\n const validationErrors = validateFHIRImportBundle(data);\n if (validationErrors.length > 0) {\n return {\n errors: validationErrors,\n imported: [],\n skipped: [],\n totalProcessed: 0,\n };\n }\n\n const bundle = data as FHIRBundle;\n\n // Extract observations\n const { observations, skipped } = extractObservationsFromBundle(bundle);\n\n // Map each observation to internal format\n const imported: ImportedObservation[] = [];\n const allSkipped: SkippedEntry[] = [...skipped];\n\n for (let i = 0; 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// 5MB\n\n/**\n * Extract LOINC code from an Observation's code.coding array\n */\nfunction extractLoincCode(observation: FHIRObservation): string | undefined {\n if (!observation.code?.coding) return undefined;\n const loincCoding = observation.code.coding.find((c) => c.system === 'http://loinc.org');\n return loincCoding?.code;\n}\n\n/**\n * Extract interpretation flag from Observation\n */\nfunction extractFlag(observation: FHIRObservation): 'H' | 'L' | '' {\n const code = observation.interpretation?.[0]?.coding?.[0]?.code;\n if (code === 'H' || code === 'HH') return 'H';\n if (code === 'L' || code === 'LL') return 'L';\n return '';\n}\n\n/**\n * Extract Observation resources from a FHIR Bundle\n */\nexport function extractObservationsFromBundle(bundle: FHIRBundle): {\n observations: FHIRObservation[];\n skipped: SkippedEntry[];\n} {\n const observations: FHIRObservation[] = [];\n const skipped: SkippedEntry[] = [];\n\n for (let i = 0; i < bundle.entry.length; i++) {\n const entry = bundle.entry[i]!;\n if (!entry.resource) {\n skipped.push({ index: i, reason: 'Entry has no resource' });\n continue;\n }\n\n if (entry.resource.resourceType !== 'Observation') {\n // Non-observation resources are silently skipped (Patient, DiagnosticReport, etc.)\n continue;\n }\n\n if (observations.length >= MAX_OBSERVATIONS) {\n skipped.push({ index: i, reason: `Maximum of ${MAX_OBSERVATIONS} observations exceeded` });\n continue;\n }\n\n observations.push(entry.resource as FHIRObservation);\n }\n\n return { observations, skipped };\n}\n\n/**\n * Map a FHIR Observation to internal format using LOINC→biomarker code lookup\n */\nexport function mapFHIRObservationToInternal(\n observation: FHIRObservation,\n index: number,\n): { observation: ImportedObservation } | { skipped: SkippedEntry } {\n const loincCode = extractLoincCode(observation);\n\n if (!loincCode) {\n return {\n skipped: {\n index,\n reason: 'No LOINC code found in observation coding',\n resourceType: 'Observation',\n },\n };\n }\n\n const internalCode = loincToCode(loincCode);\n if (!internalCode) {\n return {\n skipped: {\n index,\n loincCode,\n reason: `Unknown LOINC code: ${loincCode}`,\n resourceType: 'Observation',\n },\n };\n }\n\n const definition = getDefinitionByLoinc(loincCode);\n\n // Extract value\n let value: number | string;\n let unit = '';\n let isQualitative = false;\n\n if (observation.valueQuantity?.value !== undefined) {\n value = observation.valueQuantity.value;\n unit = observation.valueQuantity.unit || observation.valueQuantity.code || '';\n } else if (observation.valueString) {\n value = observation.valueString;\n isQualitative = true;\n } else {\n return {\n skipped: {\n index,\n loincCode,\n reason: 'Observation has no value (valueQuantity or valueString)',\n resourceType: 'Observation',\n },\n };\n }\n\n // Extract collection date (effectiveDateTime or effectivePeriod.start)\n const collectionDate = observation.effectiveDateTime || observation.effectivePeriod?.start || '';\n if (!collectionDate) {\n return {\n skipped: {\n index,\n loincCode,\n reason: 'Observation has no effectiveDateTime or effectivePeriod.start',\n resourceType: 'Observation',\n },\n };\n }\n\n // Extract reference ranges\n let referenceMin: number | undefined;\n let referenceMax: number | undefined;\n if (observation.referenceRange?.[0]) {\n referenceMin = observation.referenceRange[0].low?.value;\n referenceMax = observation.referenceRange[0].high?.value;\n }\n\n const imported: ImportedObservation = {\n biomarkerCode: internalCode,\n biomarkerName:\n definition?.names.pt[0] || definition?.names.en[0] || observation.code.text || internalCode,\n collectionDate,\n flag: extractFlag(observation),\n isQualitative,\n loincCode,\n referenceMax,\n referenceMin,\n unit: unit || definition?.unit || '',\n value,\n };\n\n return { observation: imported };\n}\n\n/**\n * Process a complete FHIR Bundle for import\n */\nexport function processImportBundle(data: unknown): FHIRImportResult {\n // Structural validation\n const validationErrors = validateFHIRImportBundle(data);\n if (validationErrors.length > 0) {\n return {\n errors: validationErrors,\n imported: [],\n skipped: [],\n totalProcessed: 0,\n };\n }\n\n const bundle = data as FHIRBundle;\n\n // Extract observations\n const { observations, skipped } = extractObservationsFromBundle(bundle);\n\n // Map each observation to internal format\n const imported: ImportedObservation[] = [];\n const allSkipped: SkippedEntry[] = [...skipped];\n\n for (let i = 0; i < observations.length; i++) {\n const result = mapFHIRObservationToInternal(observations[i]!, i);\n\n if ('observation' in result) {\n imported.push(result.observation);\n } else {\n allSkipped.push(result.skipped);\n }\n }\n\n return {\n errors: [],\n imported,\n skipped: allSkipped,\n totalProcessed: observations.length,\n };\n}\n\nexport { MAX_FILE_SIZE, MAX_OBSERVATIONS };\n"]}
@@ -1,6 +1,6 @@
1
1
  import {
2
2
  codeToLoinc
3
- } from "./chunk-I6H35QXI.js";
3
+ } from "./chunk-ICSMWCVT.js";
4
4
  import {
5
5
  getDefaultUnit,
6
6
  unitToUCUM
@@ -248,4 +248,4 @@ export {
248
248
  userProfileToFHIR,
249
249
  labResultToFHIRBundle
250
250
  };
251
- //# sourceMappingURL=chunk-N6J26FVW.js.map
251
+ //# sourceMappingURL=chunk-NR4OTNC4.js.map
@@ -1,6 +1,6 @@
1
1
  "use strict";Object.defineProperty(exports, "__esModule", {value: true});
2
2
 
3
- var _chunk2EVQ2ESBcjs = require('./chunk-2EVQ2ESB.cjs');
3
+ var _chunkEW5GLFSCcjs = require('./chunk-EW5GLFSC.cjs');
4
4
 
5
5
 
6
6
 
@@ -30,7 +30,7 @@ function interpretationDisplay(flag) {
30
30
  }
31
31
  }
32
32
  function labObservationToFHIR(observation, patientId, laboratoryName) {
33
- const loincCode = _chunk2EVQ2ESBcjs.codeToLoinc.call(void 0, observation.biomarkerCode) || "99999-9";
33
+ const loincCode = _chunkEW5GLFSCcjs.codeToLoinc.call(void 0, observation.biomarkerCode) || "99999-9";
34
34
  const sourceUnit = observation.unit || _chunkMJ254F5Kcjs.getDefaultUnit.call(void 0, observation.biomarkerCode) || observation.unit;
35
35
  const ucumUnit = _chunkMJ254F5Kcjs.unitToUCUM.call(void 0, sourceUnit);
36
36
  const isQualitative = observation.isQualitative || typeof observation.value === "string";
@@ -248,4 +248,4 @@ function labResultToFHIRBundle(report, observations, userProfile) {
248
248
 
249
249
 
250
250
  exports.labObservationToFHIR = labObservationToFHIR; exports.labReportToFHIR = labReportToFHIR; exports.userProfileToFHIR = userProfileToFHIR; exports.labResultToFHIRBundle = labResultToFHIRBundle;
251
- //# sourceMappingURL=chunk-PJJVDGX4.cjs.map
251
+ //# sourceMappingURL=chunk-OPS7XHIL.cjs.map
@@ -1 +1 @@
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