Examples of org.apache.uima.util.XMLInputSource

org.apache.uima.util.XMLInputSource
An input source used by the {@link XMLParser} to read XML documents for parsing.
The application uses the {@link #XMLInputSource(File)} constructor to create anXMLInputSource from a descriptor File. Alternatively, if the source of the XML is not a file, the {@link #XMLInputSource(InputStream,File)} constructor may beused to read the XML from an input stream. The second argument to this constructor is the relative path base, to be used if the descriptor contains imports with relative paths. It is acceptable to set this to null if it is known that the descriptor does not contain any such imports.

  protected void setUp() throws Exception {
    File typeSystemFile = JUnitExtension.getFile("ExampleCas/testTypeSystem.xml");
    File indexesFile = JUnitExtension.getFile("ExampleCas/testIndexes.xml");


    typeSystem = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(typeSystemFile));
    indexes = UIMAFramework.getXMLParser().parseFsIndexCollection(new XMLInputSource(indexesFile))
            .getFsIndexes();
  }

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  }


  private void doTestDeserializeAndReserialize(File typeSystemDescriptorFile, boolean useJCas) throws Exception {
    // deserialize a complex CAS from XCAS
    TypeSystemDescription typeSystemDescription = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(typeSystemDescriptorFile));
    CAS cas = CasCreationUtils.createCas(typeSystemDescription, new TypePriorities_impl(), indexes);
    if (useJCas) {
      cas.getJCas();
    }

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      serCasStream.close();


      // now read in a TypeSystem that's a subset of those types
      TypeSystemDescription partialTypeSystemDesc = UIMAFramework.getXMLParser()
              .parseTypeSystemDescription(
                      new XMLInputSource(JUnitExtension
                              .getFile("ExampleCas/partialTestTypeSystem.xml")));
      TypeSystem partialTypeSystem = CasCreationUtils.createCas(partialTypeSystemDesc, null, null)
              .getTypeSystem();


      // reserialize as XMI, filtering out anything that doesn't fit in the

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    //Test a partial type system with a missing some missing features and
    //missing "Organization" type
    File partialTypeSystemFile = JUnitExtension.getFile("ExampleCas/partialTestTypeSystem.xml");
    TypeSystemDescription partialTypeSystem = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(partialTypeSystemFile));
    CAS partialTsCas = CasCreationUtils.createCas(partialTypeSystem, null, indexes);
    XmiSerializationSharedData sharedData2 = new XmiSerializationSharedData();
    deserialize(xmiStr, partialTsCas, sharedData2, true, -1);
    
    assertEquals(1,sharedData2.getOutOfTypeSystemElements().size());

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    String xmiStr = serialize(cas, null);
    
    //deserialize into a CAS that's missing the Organization type
    File partialTypeSystemFile = JUnitExtension.getFile("ExampleCas/partialTestTypeSystem.xml");
    TypeSystemDescription partialTypeSystem = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(partialTypeSystemFile));
    testAnnotTypeDesc = partialTypeSystem.addType("org.apache.uima.testTypeSystem.TestAnnotation", "", "uima.tcas.Annotation");
    testAnnotTypeDesc.addFeature("arrayFeat", "", "uima.cas.FSArray");
    CAS partialTsCas = CasCreationUtils.createCas(partialTypeSystem, null, null);
    XmiSerializationSharedData sharedData = new XmiSerializationSharedData();
    deserialize(xmiStr, partialTsCas, sharedData, true, -1);

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//    System.out.println(xmiStr);
    
    //deserialize into a CAS that's missing the Organization type
    File partialTypeSystemFile = JUnitExtension.getFile("ExampleCas/partialTestTypeSystem.xml");
    TypeSystemDescription partialTypeSystem = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(partialTypeSystemFile));
    testAnnotTypeDesc = partialTypeSystem.addType("org.apache.uima.testTypeSystem.TestAnnotation", "", "uima.tcas.Annotation");
    testAnnotTypeDesc.addFeature("listFeat", "", "uima.cas.FSList");
    CAS partialTsCas = CasCreationUtils.createCas(partialTypeSystem, null, null);
    XmiSerializationSharedData sharedData = new XmiSerializationSharedData();
    deserialize(xmiStr, partialTsCas, sharedData, true, -1);

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    //Test a partial type system with a missing some missing features and
    //missing "Organization" type
    File partialTypeSystemFile = JUnitExtension.getFile("ExampleCas/partialTestTypeSystem.xml");
    TypeSystemDescription partialTypeSystem = UIMAFramework.getXMLParser().parseTypeSystemDescription(
            new XMLInputSource(partialTypeSystemFile));
    CAS partialTsCas = CasCreationUtils.createCas(partialTypeSystem, null, indexes);
    XmiSerializationSharedData sharedData2 = new XmiSerializationSharedData();
    deserialize(xmiStr, partialTsCas, sharedData2, true, -1);
        
    String xmiStr3 = serialize(partialTsCas, sharedData2);

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        _testInvalidDescriptor(JUnitExtension
                .getFile("TextAnalysisEngineImplTest/InvalidConfigParams" + i + ".xml"));
      }


      // try a descriptor with configuration parameter overrides - should work
      XMLInputSource in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/AggregateTaeWithConfigParamOverrides.xml"));


      AnalysisEngineDescription desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      AggregateAnalysisEngine_impl ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);


      PrimitiveAnalysisEngine_impl delegate1 = (PrimitiveAnalysisEngine_impl) ae._getASB()
              .getComponentAnalysisEngines().get("Annotator1");
      PrimitiveAnalysisEngine_impl delegate2 = (PrimitiveAnalysisEngine_impl) ae._getASB()
              .getComponentAnalysisEngines().get("Annotator2");
      FlowControllerContainer flowController = ((ASB_impl) ae._getASB())
              .getFlowControllerContainer();
      String strVal1 = (String) delegate1.getUimaContext().getConfigParameterValue("en",
              "StringParam");
      Assert.assertEquals("override", strVal1);
      String strVal2 = (String) delegate2.getUimaContext().getConfigParameterValue("en",
              "StringParam");
      Assert.assertEquals("en", strVal2);
      String strVal3 = (String) flowController.getUimaContext().getConfigParameterValue("en",
              "StringParam");
      Assert.assertEquals("en", strVal3);


      Integer intVal1 = (Integer) delegate1.getUimaContext().getConfigParameterValue("en",
              "IntegerParam");
      Assert.assertEquals(100, intVal1.intValue());
      Integer intVal2 = (Integer) delegate2.getUimaContext().getConfigParameterValue("en",
              "IntegerParam");
      Assert.assertEquals(100, intVal2.intValue());
      Integer intVal3 = (Integer) flowController.getUimaContext().getConfigParameterValue("en",
              "IntegerParam");
      Assert.assertEquals(100, intVal3.intValue());


      String[] strArrVal1 = (String[]) delegate1.getUimaContext().getConfigParameterValue("en",
              "StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal1));
      String[] strArrVal2 = (String[]) delegate2.getUimaContext().getConfigParameterValue("en",
              "StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal2));
      String[] strArrVal3 = (String[]) flowController.getUimaContext().getConfigParameterValue(
              "en", "StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal3));


      // anotherdescriptor with configuration parameter overrides (this time no groups)
      in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/AggregateTaeWithConfigParamOverrides2.xml"));


      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);


      delegate1 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "Annotator1");
      delegate2 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "Annotator2");
      flowController = ((ASB_impl) ae._getASB()).getFlowControllerContainer();


      strVal1 = (String) delegate1.getUimaContext().getConfigParameterValue("StringParam");
      Assert.assertEquals("override", strVal1);
      strVal2 = (String) delegate2.getUimaContext().getConfigParameterValue("StringParam");
      Assert.assertEquals("myString", strVal2);
      strVal3 = (String) flowController.getUimaContext().getConfigParameterValue("StringParam");
      Assert.assertEquals("myString", strVal3);


      intVal1 = (Integer) delegate1.getUimaContext().getConfigParameterValue("IntegerParam");
      Assert.assertEquals(100, intVal1.intValue());
      intVal2 = (Integer) delegate2.getUimaContext().getConfigParameterValue("IntegerParam");
      Assert.assertEquals(100, intVal2.intValue());
      intVal3 = (Integer) flowController.getUimaContext().getConfigParameterValue("IntegerParam");
      Assert.assertEquals(100, intVal3.intValue());


      strArrVal1 = (String[]) delegate1.getUimaContext()
              .getConfigParameterValue("StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal1));
      strArrVal2 = (String[]) delegate2.getUimaContext()
              .getConfigParameterValue("StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal2));
      strArrVal3 = (String[]) flowController.getUimaContext().getConfigParameterValue(
              "StringArrayParam");
      Assert.assertEquals(Arrays.asList(new String[] { "override" }), Arrays.asList(strArrVal3));


      // try a descriptor that's invalid due to an unsatisfied resource dependency
      _testInvalidDescriptor(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/UnsatisfiedResourceDependency.xml"));


      ae.destroy();
      
   // anotherdescriptor with configuration parameter overrides (this time no groups)
      in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/AggregateTaeWithConfigParamOverrides2.xml"));


      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);
      
      // test an aggregate TAE containing a CAS Consumer
      in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/AggregateTaeWithCasConsumer.xml"));
      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);
      delegate1 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "Annotator");
      delegate2 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "CasConsumer");
      assertTrue(delegate1.getAnalysisEngineMetaData().getOperationalProperties().getModifiesCas());
      assertFalse(delegate2.getAnalysisEngineMetaData().getOperationalProperties().getModifiesCas());
      ae.destroy();
      
      // try an aggregate with no components (tests that empty flow works)
      in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/EmptyAggregate.xml"));
      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      FixedFlow emptyFlow = (FixedFlow) desc.getAnalysisEngineMetaData().getFlowConstraints();
      assertNotNull(emptyFlow.getFixedFlow());
      assertTrue(emptyFlow.getFixedFlow().length == 0);
      ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);
      ae.destroy();
      
      // aggregate with duplicate group overrides
      in = new XMLInputSource(JUnitExtension
              .getFile("TextAnalysisEngineImplTest/AggregateWithDuplicateGroupOverrides.xml"));
      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      ae = new AggregateAnalysisEngine_impl();
      ae.initialize(desc, Collections.EMPTY_MAP);


      delegate1 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "Annotator1");
      delegate2 = (PrimitiveAnalysisEngine_impl) ae._getASB().getComponentAnalysisEngines().get(
              "Annotator2");
      String commonParamA = (String) delegate1.getUimaContext().getConfigParameterValue("a",
              "CommonParam");
      Assert.assertEquals("AggregateParam1a", commonParamA);
      String ann1_groupBParamBC = (String) delegate1.getUimaContext().getConfigParameterValue("b",
              "BCParam");
      Assert.assertEquals("AggregateParam2b", ann1_groupBParamBC);
      String ann2_groupBParamBC = (String) delegate2.getUimaContext().getConfigParameterValue("b",
              "BCParam");
      Assert.assertEquals("AggregateParam3b", ann2_groupBParamBC);


      ae.destroy();


      // descriptor with configuration parameter external overrides
      // implicitly load settings values from the system property UimaExternalSettings
      String resDir = "src/test/resources/TextAnalysisEngineImplTest/";
      System.setProperty("UimaExternalOverrides", resDir+"testExternalOverride.settings,"+resDir+"testExternalOverride2.settings");
      in = new XMLInputSource(JUnitExtension.getFile("TextAnalysisEngineImplTest/AnnotatorWithExternalOverrides.xml"));
      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      ae1 = new PrimitiveAnalysisEngine_impl();
      ae1.initialize(desc, null);
      String[] arrayParam = (String[]) ae1.getUimaContext().getConfigParameterValue("StringArrayParam");
      Assert.assertNotNull(arrayParam);
      Assert.assertEquals(5, arrayParam.length);
      String[] expect = { "Prefix", "-", "Suffix", "->", "Prefix-Suffix" };
      Assert.assertTrue(Arrays.equals(expect, arrayParam));
      Integer[] intArr = (Integer[]) ae1.getUimaContext().getConfigParameterValue("IntegerArrayParam");
      Assert.assertEquals(4, intArr.length);
      Float[] floats = (Float[]) ae1.getUimaContext().getConfigParameterValue("FloatArrayParam");
      Assert.assertTrue(floats != null && floats.length == 0);       // Should be an empty array
      System.clearProperty("UimaExternalOverrides");
      
      ae1.destroy();
      
      // aggregate with delegate with configuration parameter external overrides
      // use aggregate so the annotator can run tests based on the context.
      // load settings explicitly, ignoring system property
      System.setProperty("UimaExternalOverrides", "missing file");  // Will fail if used
      in = new XMLInputSource(JUnitExtension.getFile("TextAnalysisEngineImplTest/AggregateWithExternalOverrides.xml"));
      desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      Map<String,Object> additionalParams = new HashMap<String,Object>();
      Settings extSettings = new Settings_impl();
      FileInputStream fis = new FileInputStream(new File(resDir,"testExternalOverride2.settings"));
      extSettings.load(fis);

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      JUnitExtension.handleException(e);
    }
  }


  protected void _testInvalidDescriptor(File aFile) throws IOException {
    XMLInputSource in = new XMLInputSource(aFile);
    Exception ex = null;
    try {
      AnalysisEngineDescription desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(in);
      UIMAFramework.produceAnalysisEngine(desc);
    } catch (InvalidXMLException e) {

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        fos.close();
        assertEquals(0,outFile.length());
      }


      AnalysisEngineDescription aggWithCcDesc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(
              new XMLInputSource(JUnitExtension
                      .getFile("TextAnalysisEngineImplTest/AggregateTaeWithCasConsumer.xml")));
      
      _testProcess(aggWithCcDesc, new String[] {"en"});      
      // test that CAS Consumer ran
      if (null == outFile) {
        outFile = JUnitExtension.getFile("CpmOutput.txt");
      }
      assertTrue(outFile != null && outFile.exists());
      assertTrue(outFile.length() > 0);
      outFile.delete();
      
      //test aggregate that uses ParallelStep
      AnalysisEngineDescription desc = UIMAFramework.getXMLParser().parseAnalysisEngineDescription(
        new XMLInputSource(JUnitExtension.getFile("TextAnalysisEngineImplTest/AggregateForParallelStepTest.xml")));
      AnalysisEngine ae = UIMAFramework.produceAnalysisEngine(desc);
      CAS cas = ae.newCAS();
      cas.setDocumentText("new test");
      ae.process(cas);
      assertEquals("new test", TestAnnotator.lastDocument);

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