@Test
public void testGetDocumentCas()
throws ResourceInitializationException, IOException, SAXException, URISyntaxException,
ParserConfigurationException {
CAS aCAS =
CasCreationUtils.createCas(
XmiFileTreeCorpusDAO.getTypeSystem(corpusPathString), null, null, null);
corpusDAO.getDocumentCas(new URI("62007.txt"), "1", aCAS);
assertThat(aCAS.getDocumentText(), containsString("РИА Новости"));
assertEquals(6, CasUtil.selectAll(aCAS).size());
assertEquals(
1,
CasUtil.select(aCAS, CasUtil.getAnnotationType(aCAS, "ru.kfu.itis.issst.evex.Weapon"))
.size());
aCAS =
CasCreationUtils.createCas(
XmiFileTreeCorpusDAO.getTypeSystem(corpusPathString), null, null, null);
corpusDAO.getDocumentCas(new URI("62007.txt"), "5", aCAS);
assertThat(aCAS.getDocumentText(), containsString("РИА Новости"));
assertThat(CasUtil.selectAll(aCAS).size(), equalTo(5));
assertEquals(
0,
CasUtil.select(aCAS, CasUtil.getAnnotationType(aCAS, "ru.kfu.itis.issst.evex.Weapon"))
.size());
}
/**
* Called when the processing of a Document is completed. <br>
* The process status can be looked at and corresponding actions taken.
*
* @param aCas CAS corresponding to the completed processing
* @param aStatus EntityProcessStatus that holds the status of all the events for aEntity
*/
public void entityProcessComplete(CAS aCas, EntityProcessStatus aStatus) {
if (aStatus.isException()) {
List<Exception> exceptions = aStatus.getExceptions();
for (int i = 0; i < exceptions.size(); i++) {
((Throwable) exceptions.get(i)).printStackTrace();
}
return;
}
entityCount++;
String docText = aCas.getDocumentText();
if (docText != null) {
size += docText.length();
}
}
@Test
public void test() throws Exception {
String html = "<Parent>\n";
html += "<Child1>Some content</Child1>\n";
html += "<Child2 attribute=“someValue” />\n";
html += "<Child3>More content.</Child3>\n";
html += "</Parent>\n";
URL urlA = HtmlAnnotator.class.getClassLoader().getResource("HtmlAnnotator.xml");
if (urlA == null) {
urlA =
HtmlAnnotator.class
.getClassLoader()
.getResource("org/apache/uima/ruta/engine/HtmlAnnotator.xml");
}
URL urlC = HtmlAnnotator.class.getClassLoader().getResource("HtmlConverter.xml");
if (urlC == null) {
urlC =
HtmlAnnotator.class
.getClassLoader()
.getResource("org/apache/uima/ruta/engine/HtmlConverter.xml");
}
XMLInputSource inA = new XMLInputSource(urlA);
ResourceSpecifier specifierA = UIMAFramework.getXMLParser().parseResourceSpecifier(inA);
AnalysisEngine aeA = UIMAFramework.produceAnalysisEngine(specifierA);
aeA.setConfigParameterValue(HtmlAnnotator.PARAM_ONLY_CONTENT, false);
aeA.reconfigure();
XMLInputSource inC = new XMLInputSource(urlC);
ResourceSpecifier specifierC = UIMAFramework.getXMLParser().parseResourceSpecifier(inC);
AnalysisEngine aeC = UIMAFramework.produceAnalysisEngine(specifierC);
aeC.setConfigParameterValue(HtmlConverter.PARAM_SKIP_WHITESPACES, false);
aeC.setConfigParameterValue(HtmlConverter.PARAM_PROCESS_ALL, true);
aeC.setConfigParameterValue(
HtmlConverter.PARAM_GAP_INDUCING_TAGS, new String[] {"child1", "child2", "child3"});
aeC.setConfigParameterValue(HtmlConverter.PARAM_GAP_TEXT, "$");
aeC.reconfigure();
CAS cas = aeA.newCAS();
Type tagType = cas.getTypeSystem().getType(HtmlAnnotator.NAMESPACE + "TAG");
AnnotationIndex<AnnotationFS> ai = null;
FSIterator<AnnotationFS> iterator = null;
cas.setDocumentText(html);
aeA.process(cas);
aeC.process(cas);
CAS plainTextCas = cas.getView(HtmlConverter.DEFAULT_MODIFIED_VIEW);
assertEquals("$Some content$$More content.", plainTextCas.getDocumentText());
ai = plainTextCas.getAnnotationIndex(tagType);
iterator = ai.iterator();
assertEquals(4, ai.size());
assertEquals("$Some content$$More content.", iterator.next().getCoveredText());
assertEquals("$Some content", iterator.next().getCoveredText());
assertEquals("$", iterator.next().getCoveredText());
assertEquals("$More content.", iterator.next().getCoveredText());
cas.release();
}
@Test
public void testExpandOffsets() throws Exception {
String html = "<Parent>\n";
html += "<Child1>Some content</Child1>\n";
html += "<Child2 attribute=“someValue” />\n";
html += "<Child3>More content.</Child3>\n";
html += "</Parent>\n";
URL urlA = HtmlAnnotator.class.getClassLoader().getResource("HtmlAnnotator.xml");
if (urlA == null) {
urlA =
HtmlAnnotator.class
.getClassLoader()
.getResource("org/apache/uima/ruta/engine/HtmlAnnotator.xml");
}
URL urlC = HtmlAnnotator.class.getClassLoader().getResource("HtmlConverter.xml");
if (urlC == null) {
urlC =
HtmlAnnotator.class
.getClassLoader()
.getResource("org/apache/uima/ruta/engine/HtmlConverter.xml");
}
XMLInputSource inA = new XMLInputSource(urlA);
ResourceSpecifier specifierA = UIMAFramework.getXMLParser().parseResourceSpecifier(inA);
AnalysisEngine aeA = UIMAFramework.produceAnalysisEngine(specifierA);
aeA.setConfigParameterValue(HtmlAnnotator.PARAM_ONLY_CONTENT, false);
aeA.reconfigure();
XMLInputSource inC = new XMLInputSource(urlC);
ResourceSpecifier specifierC = UIMAFramework.getXMLParser().parseResourceSpecifier(inC);
AnalysisEngine aeC = UIMAFramework.produceAnalysisEngine(specifierC);
aeC.setConfigParameterValue(HtmlConverter.PARAM_SKIP_WHITESPACES, false);
aeC.setConfigParameterValue(HtmlConverter.PARAM_PROCESS_ALL, true);
aeC.setConfigParameterValue(HtmlConverter.PARAM_EXPAND_OFFSETS, true);
aeC.reconfigure();
CAS cas = aeA.newCAS();
Type tagType = cas.getTypeSystem().getType(HtmlAnnotator.NAMESPACE + "TAG");
Feature expandedFeature = tagType.getFeatureByBaseName("expandedOffsets");
AnnotationIndex<AnnotationFS> ai = null;
FSIterator<AnnotationFS> iterator = null;
cas.setDocumentText(html);
aeA.process(cas);
aeC.process(cas);
CAS plainTextCas = cas.getView(HtmlConverter.DEFAULT_MODIFIED_VIEW);
assertEquals("Some contentMore content.", plainTextCas.getDocumentText());
ai = plainTextCas.getAnnotationIndex(tagType);
iterator = ai.iterator();
assertEquals(4, ai.size());
AnnotationFS next = null;
next = iterator.next();
assertEquals(false, next.getBooleanValue(expandedFeature));
assertEquals("Some contentMore content.", next.getCoveredText());
next = iterator.next();
assertEquals(false, next.getBooleanValue(expandedFeature));
assertEquals("Some content", next.getCoveredText());
next = iterator.next();
boolean b1 = next.getBooleanValue(expandedFeature);
assertEquals("More content.", next.getCoveredText());
next = iterator.next();
boolean b2 = next.getBooleanValue(expandedFeature);
assertEquals("More content.", next.getCoveredText());
// for one of these two annotation (with same offsets) the feature must be set to true
assertEquals(true, b1 || b2);
cas.release();
}
/** Copied and modified from {@link org.apache.uima.util.CasToInlineXml} */
private static String toXML(CAS cas, AnnotationsToElements converter) throws SAXException {
ByteArrayOutputStream byteArrayOutputStream = new ByteArrayOutputStream();
XMLSerializer sax2xml = new XMLSerializer(byteArrayOutputStream, false);
// get document text
String docText = cas.getDocumentText();
char[] docCharArray = docText.toCharArray();
// get iterator over annotations sorted by increasing start position and
// decreasing end position
FSIterator<AnnotationFS> iterator = cas.getAnnotationIndex().iterator();
// This is basically a recursive algorithm that has had the recursion
// removed through the use of an explicit Stack. We iterate over the
// annotations, and if an annotation contains other annotations, we
// push the parent annotation on the stack, process the children, and
// then come back to the parent later.
List<AnnotationFS> stack = new ArrayList<AnnotationFS>();
int pos = 0;
ContentHandler handler = sax2xml.getContentHandler();
handler.startDocument();
// write the start tag
converter.startRootElement(handler);
// now use null is a placeholder for this artificial Document annotation
AnnotationFS curAnnot = null;
while (iterator.isValid()) {
AnnotationFS nextAnnot = iterator.get();
if (curAnnot == null || nextAnnot.getBegin() < curAnnot.getEnd()) {
// nextAnnot's start point is within the span of curAnnot
if (curAnnot == null || nextAnnot.getEnd() <= curAnnot.getEnd()) // crossover span check
{
// nextAnnot is contained within curAnnot
// write text between current pos and beginning of nextAnnot
try {
handler.characters(docCharArray, pos, nextAnnot.getBegin() - pos);
pos = nextAnnot.getBegin();
converter.startAnnotationElement(nextAnnot, handler);
// push parent annotation on stack
stack.add(curAnnot);
// move on to next annotation
curAnnot = nextAnnot;
} catch (StringIndexOutOfBoundsException e) {
System.err.println(
"Invalid annotation range: "
+ nextAnnot.getBegin()
+ ","
+ nextAnnot.getEnd()
+ " in document of length "
+ docText.length());
}
}
iterator.moveToNext();
} else {
// nextAnnot begins after curAnnot ends
// write text between current pos and end of curAnnot
try {
handler.characters(docCharArray, pos, curAnnot.getEnd() - pos);
pos = curAnnot.getEnd();
} catch (StringIndexOutOfBoundsException e) {
System.err.println(
"Invalid annotation range: "
+ curAnnot.getBegin()
+ ","
+ curAnnot.getEnd()
+ " in document of length "
+ docText.length());
}
converter.endAnnotationElement(curAnnot, handler);
// pop next containing annotation off stack
curAnnot = stack.remove(stack.size() - 1);
}
}
// finished writing all start tags, now finish up
if (curAnnot != null) {
try {
handler.characters(docCharArray, pos, curAnnot.getEnd() - pos);
pos = curAnnot.getEnd();
} catch (StringIndexOutOfBoundsException e) {
System.err.println(
"Invalid annotation range: "
+ curAnnot.getBegin()
+ ","
+ curAnnot.getEnd()
+ "in document of length "
+ docText.length());
}
converter.endAnnotationElement(curAnnot, handler);
while (!stack.isEmpty()) {
curAnnot = stack.remove(stack.size() - 1); // pop
if (curAnnot == null) {
break;
}
try {
handler.characters(docCharArray, pos, curAnnot.getEnd() - pos);
pos = curAnnot.getEnd();
} catch (StringIndexOutOfBoundsException e) {
System.err.println(
"Invalid annotation range: "
+ curAnnot.getBegin()
+ ","
+ curAnnot.getEnd()
+ "in document of length "
+ docText.length());
}
converter.endAnnotationElement(curAnnot, handler);
}
}
if (pos < docCharArray.length) {
handler.characters(docCharArray, pos, docCharArray.length - pos);
}
converter.endRootElement(handler);
handler.endDocument();
// return XML string
return new String(byteArrayOutputStream.toByteArray());
}
/**
* Called when the processing of a Document is completed. <br>
* The process status can be looked at and corresponding actions taken.
*
* @param aCas CAS corresponding to the completed processing
* @param aStatus EntityProcessStatus that holds the status of all the events for aEntity
*/
public void entityProcessComplete(CAS aCas, EntityProcessStatus aStatus) {
if (aStatus != null) {
if (aStatus.isException()) {
System.err.println("Error on process CAS call to remote service:");
List exceptions = aStatus.getExceptions();
for (int i = 0; i < exceptions.size(); i++) {
((Throwable) exceptions.get(i)).printStackTrace();
}
if (!ignoreErrors) {
System.err.println("Terminating Client...");
stop();
}
}
if (logCas) {
String ip = "no IP";
List eList = aStatus.getProcessTrace().getEventsByComponentName("UimaEE", false);
for (int e = 0; e < eList.size(); e++) {
ProcessTraceEvent event = (ProcessTraceEvent) eList.get(e);
if (event.getDescription().equals("Service IP")) {
ip = event.getResultMessage();
}
}
String casId = ((UimaASProcessStatus) aStatus).getCasReferenceId();
if (casId != null) {
long current = System.nanoTime() / 1000000 - mStartTime;
if (casMap.containsKey(casId)) {
Object value = casMap.get(casId);
if (value != null && value instanceof Long) {
long start = ((Long) value).longValue();
System.out.println(ip + "\t" + start + "\t" + (current - start));
}
}
}
} else {
System.out.print(".");
if (0 == (entityCount + 1) % 50) {
System.out.print((entityCount + 1) + " processed\n");
}
}
}
// if output dir specified, dump CAS to XMI
if (outputDir != null) {
// try to retrieve the filename of the input file from the CAS
File outFile = null;
Type srcDocInfoType =
aCas.getTypeSystem().getType("org.apache.uima.examples.SourceDocumentInformation");
if (srcDocInfoType != null) {
FSIterator it = aCas.getIndexRepository().getAllIndexedFS(srcDocInfoType);
if (it.hasNext()) {
FeatureStructure srcDocInfoFs = it.get();
Feature uriFeat = srcDocInfoType.getFeatureByBaseName("uri");
Feature offsetInSourceFeat = srcDocInfoType.getFeatureByBaseName("offsetInSource");
String uri = srcDocInfoFs.getStringValue(uriFeat);
int offsetInSource = srcDocInfoFs.getIntValue(offsetInSourceFeat);
File inFile;
try {
inFile = new File(new URL(uri).getPath());
String outFileName = inFile.getName();
if (offsetInSource > 0) {
outFileName += ("_" + offsetInSource);
}
outFileName += ".xmi";
outFile = new File((String) outputDir, outFileName);
} catch (MalformedURLException e1) {
// invalid URI, use default processing below
}
}
}
if (outFile == null) {
outFile = new File((String) outputDir, "doc" + entityCount);
}
try {
FileOutputStream outStream = new FileOutputStream(outFile);
try {
XmiCasSerializer.serialize(aCas, outStream);
} finally {
outStream.close();
}
} catch (Exception e) {
System.err.println("Could not save CAS to XMI file");
e.printStackTrace();
}
}
// update stats
entityCount++;
String docText = aCas.getDocumentText();
if (docText != null) {
size += docText.length();
}
// Called just before sendCas with next CAS from collection reader
}
