HI,
I want to get the output in json, I'm trying the following program,
public static void main(final String... args) throws IOException,
UIMAException, SAXException {
final String note = "Serum Cholesterol 154 150 250
mgs/dl\n-\nSerum Triglycerides 67 90 200 mgs /dl\n-\nSerum HDL:
Cholesterol 38 35 55 mgs /dl\n-\nSerum LDL: Cholesterol 49 85 150
mgs/d1\n-\nSerum VLDL: Cholesterol 13 10 40 mgs/dl\n-\nTotal
Cholesterol / HDL Ratio: 3.90\";
final JCas jcas = JCasFactory.createJCas();
jcas.setDocumentText(note);
// final AnalysisEngineDescription aed = getDefaultPipeline();
final AnalysisEngineDescription aed = getFastPipeline(); //
Outputs from default and fast pipeline are identical
SimplePipeline.runPipeline(jcas, aed);
Collection<TOP> codes = JCasUtil.selectAll(jcas);
List<TOP> list = new ArrayList<>(codes)
TOP [] res = list.toArray(new TOP[list.size()]);
// System.out.println(Arrays.toString(res));
String json = new Gson().toJson(res);
System.out.println(json);
}
But this gives following error,
Exception in thread "main" java.lang.IllegalArgumentException: class
org.apache.uima.jcas.tcas.DocumentAnnotation_Type declares multiple
JSON fields named fsGenerator
at
com.google.gson.internal.bind.ReflectiveTypeAdapterFactory.getBoundFields(ReflectiveTypeAdapterFactory.java:122)
at
com.google.gson.internal.bind.ReflectiveTypeAdapterFactory.create(ReflectiveTypeAdapterFactory.java:72)
at com.google.gson.Gson.getAdapter(Gson.java:353)
at
com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.write(TypeAdapterRuntimeTypeWrapper.java:55)
at
com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.write(ReflectiveTypeAdapterFactory.java:89)
at
com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.write(ReflectiveTypeAdapterFactory.java:195)
at
com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.write(TypeAdapterRuntimeTypeWrapper.java:68)
at
com.google.gson.internal.bind.ArrayTypeAdapter.write(ArrayTypeAdapter.java:93)
at com.google.gson.Gson.toJson(Gson.java:586)
at com.google.gson.Gson.toJson(Gson.java:565)
at com.google.gson.Gson.toJson(Gson.java:520)
at com.google.gson.Gson.toJson(Gson.java:500)
at
org.apache.ctakes.clinicalpipeline.ExtractNEs.main(ExtractNEs.java:146)
Any guidance would be really helpful.
Thanks