code stringlengths 73 34.1k | label stringclasses 1
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public Set<String> getIdsForIdWithAncestors(String termId) {
if (!terms.containsKey(termId))
return new HashSet<String>();
Stack<String> idsToConsider = new Stack<String>();
idsToConsider.add(termId);
Set<String> resultIds = new HashSet<String>();
while (!idsToConside... | java |
public Set<String> getIdsForTermWithAncestors(String s) {
if (!indexByName.containsKey(s))
return new HashSet<String>();
Stack<String> idsToConsider = new Stack<String>();
idsToConsider.addAll(getIdsForTerm(s));
Set<String> resultIds = new HashSet<String>();
while (!i... | java |
public Set<String> getIdsForIdWithDescendants(String s) {
buildIsTypeOf();
Stack<String> idsToConsider = new Stack<String>();
idsToConsider.add(s);
Set<String> resultIds = new HashSet<String>();
while (!idsToConsider.isEmpty()) {
String id = idsToConsider.pop();
... | java |
public String getNameForID(String id) {
if (!terms.containsKey(id))
return null;
return terms.get(id).getName();
} | java |
public String getDefinitionForID(String id) {
if (!terms.containsKey(id))
return null;
return terms.get(id).getDef();
} | java |
public Set<String> processMentionString(String mention) {
Set<String> result = new HashSet<String>();
result.add(mention);
for (MentionEditor editor : editors) {
Set<String> newResult = new HashSet<String>();
for (String mentionEdit : result) {
newResult.a... | java |
public void add(T value) {
if (value == null)
return;
if (map.containsKey(value)) {
map.put(value, map.get(value) + 1);
} else {
map.put(value, 1l);
}
} | java |
public List<MedlineCitation> parseAsArticles(InputStream is) {
try {
MedlineCitationSet parse = (MedlineCitationSet) unmarshaller
.unmarshal(is);
return parse.getMedlineCitation();
} catch (Exception e) {
LOG.warn("could not parse article ", e);
... | java |
public String getUrl() {
if (FullTextLink_Type.featOkTst && ((FullTextLink_Type)jcasType).casFeat_url == null)
jcasType.jcas.throwFeatMissing("url", "de.julielab.jules.types.FullTextLink");
return jcasType.ll_cas.ll_getStringValue(addr, ((FullTextLink_Type)jcasType).casFeatCode_url);} | java |
public void setUrl(String v) {
if (FullTextLink_Type.featOkTst && ((FullTextLink_Type)jcasType).casFeat_url == null)
jcasType.jcas.throwFeatMissing("url", "de.julielab.jules.types.FullTextLink");
jcasType.ll_cas.ll_setStringValue(addr, ((FullTextLink_Type)jcasType).casFeatCode_url, v);} | java |
public String getIconUrl() {
if (FullTextLink_Type.featOkTst && ((FullTextLink_Type)jcasType).casFeat_iconUrl == null)
jcasType.jcas.throwFeatMissing("iconUrl", "de.julielab.jules.types.FullTextLink");
return jcasType.ll_cas.ll_getStringValue(addr, ((FullTextLink_Type)jcasType).casFeatCode_iconUrl);} | java |
public void setIconUrl(String v) {
if (FullTextLink_Type.featOkTst && ((FullTextLink_Type)jcasType).casFeat_iconUrl == null)
jcasType.jcas.throwFeatMissing("iconUrl", "de.julielab.jules.types.FullTextLink");
jcasType.ll_cas.ll_setStringValue(addr, ((FullTextLink_Type)jcasType).casFeatCode_iconUrl, v);} | java |
private static void addFullTextPipes(List<String> usedPipeNames,
List<Pipe> pipes) {
// blabla 24 24
pipes.add(new LongRegexSpaced("digit_then_other_then_digit", Pattern
.compile("\\d+[^\\d]+\\d+"), 2, 4));
// 30 mM K SO , 5 mM MgCl 6H O, 10 mM 24 24 22 HEPES
... | java |
public String getValue() {
if (MMAXAttribute_Type.featOkTst && ((MMAXAttribute_Type)jcasType).casFeat_value == null)
jcasType.jcas.throwFeatMissing("value", "de.julielab.jules.types.mmax.MMAXAttribute");
return jcasType.ll_cas.ll_getStringValue(addr, ((MMAXAttribute_Type)jcasType).casFeatCode_value);} | java |
public void write(File f)
{
try
{
ObjectOutputStream oos = new ObjectOutputStream(new GZIPOutputStream(new FileOutputStream(f)));
oos.writeObject(textDirection);
if (textDirection.doForward())
oos.writeObject(forwardCRF);
if (te... | java |
public String getEntityId() {
if (DictTerm_Type.featOkTst && ((DictTerm_Type)jcasType).casFeat_entityId == null)
jcasType.jcas.throwFeatMissing("entityId", "ch.epfl.bbp.uima.types.DictTerm");
return jcasType.ll_cas.ll_getStringValue(addr, ((DictTerm_Type)jcasType).casFeatCode_entityId);} | java |
public void setEntityId(String v) {
if (DictTerm_Type.featOkTst && ((DictTerm_Type)jcasType).casFeat_entityId == null)
jcasType.jcas.throwFeatMissing("entityId", "ch.epfl.bbp.uima.types.DictTerm");
jcasType.ll_cas.ll_setStringValue(addr, ((DictTerm_Type)jcasType).casFeatCode_entityId, v);} | java |
public String getAnnotType() {
if (DictTerm_Type.featOkTst && ((DictTerm_Type)jcasType).casFeat_annotType == null)
jcasType.jcas.throwFeatMissing("annotType", "ch.epfl.bbp.uima.types.DictTerm");
return jcasType.ll_cas.ll_getStringValue(addr, ((DictTerm_Type)jcasType).casFeatCode_annotType);} | java |
public void setAnnotType(String v) {
if (DictTerm_Type.featOkTst && ((DictTerm_Type)jcasType).casFeat_annotType == null)
jcasType.jcas.throwFeatMissing("annotType", "ch.epfl.bbp.uima.types.DictTerm");
jcasType.ll_cas.ll_setStringValue(addr, ((DictTerm_Type)jcasType).casFeatCode_annotType, v);} | java |
private Templates getTemplates(String filename) {
// InputStream is =
// AnnotationViewGenerator.class.getResourceAsStream(filename);
Templates templates;
InputStream is = null;
try {
is = ResourceHelper.getInputStream("viewer/" + filename);
templates = mTFactory.newTemplates(new StreamSource(is));
} ca... | java |
private void writeToFile(String filename, File outputDir) {
File outFile = new File(outputDir, filename);
OutputStream os;
try {
os = new FileOutputStream(outFile);
} catch (FileNotFoundException e) {
throw new UIMARuntimeException(e);
}
InputStream is = null;
try {
is = ResourceHelper.getInputStr... | java |
public static String autoGenerateStyleMap(
AnalysisEngineMetaData aTaeMetaData) {
// styles used in automatically generated style maps
final String[] STYLES = { "color:black; background:lightblue;",
"color:black; background:lightgreen;",
"color:black; background:orange;",
"color:black; background:yellow;"... | java |
public static String autoGenerateStyleMap(TypeSystemDescription aTypeSystem) {
// styles used in automatically generated style maps
final String[] STYLES = { "color:black; background:lightblue;",
"color:black; background:lightgreen;",
"color:black; background:orange;",
"color:black; background:yellow;",
"col... | java |
public static String toLine(Event event) {
StringBuffer sb = new StringBuffer();
sb.append(event.getOutcome());
String[] context = event.getContext();
for (int ci=0,cl=context.length;ci<cl;ci++) {
sb.append(" "+context[ci]);
}
sb.append(System.getProperty("line.separator"));
return sb.... | java |
public static void main(String[] args) throws IOException {
if (args.length == 0) {
System.err.println("Usage: FileEventStream eventfile [iterations cutoff]");
System.exit(1);
}
int ai=0;
String eventFile = args[ai++];
EventStream es = new FileEventStream(eventFile);
int iterations =... | java |
private void addCapabilities(CollectionReaderDescription crd) {
for (Capability capability : crd.getCollectionReaderMetaData()
.getCapabilities()) {
for (TypeOrFeature output : capability.getOutputs()) {
// LOG.info("add @TypeCapability: " + output.getName());
... | java |
private void checkAndAddCapabilities(AnalysisEngineDescription aed) {
for (Capability capability : aed.getAnalysisEngineMetaData()
.getCapabilities()) {
for (TypeOrFeature input : capability.getInputs())
if (!outputTypes.contains(input.getName()))
... | java |
public String getMostProbableSpeciesId() {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_mostProbableSpeciesId == null)
jcasType.jcas.throwFeatMissing("mostProbableSpeciesId", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
return jcasType.ll_cas.ll_getStringValue(addr, ((Linna... | java |
public void setMostProbableSpeciesId(String v) {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_mostProbableSpeciesId == null)
jcasType.jcas.throwFeatMissing("mostProbableSpeciesId", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
jcasType.ll_cas.ll_setStringValue(addr, ((Linnae... | java |
public String getAllIdsString() {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_allIdsString == null)
jcasType.jcas.throwFeatMissing("allIdsString", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
return jcasType.ll_cas.ll_getStringValue(addr, ((LinnaeusSpecies_Type)jcasType).c... | java |
public void setAllIdsString(String v) {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_allIdsString == null)
jcasType.jcas.throwFeatMissing("allIdsString", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
jcasType.ll_cas.ll_setStringValue(addr, ((LinnaeusSpecies_Type)jcasType).ca... | java |
public boolean getAmbigous() {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_ambigous == null)
jcasType.jcas.throwFeatMissing("ambigous", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
return jcasType.ll_cas.ll_getBooleanValue(addr, ((LinnaeusSpecies_Type)jcasType).casFeatCode... | java |
public void setAmbigous(boolean v) {
if (LinnaeusSpecies_Type.featOkTst && ((LinnaeusSpecies_Type)jcasType).casFeat_ambigous == null)
jcasType.jcas.throwFeatMissing("ambigous", "ch.epfl.bbp.uima.types.LinnaeusSpecies");
jcasType.ll_cas.ll_setBooleanValue(addr, ((LinnaeusSpecies_Type)jcasType).casFeatCode_... | java |
private double getMinStringSize(String[] tTokens, String[] uTokens) {
double tSize = 0, uSize = 0;
for (int i = 0; i < tTokens.length; i++) {
tSize += tTokens[i].length();
}
for (int i = 0; i < uTokens.length; i++) {
uSize += uTokens[i].length();
}
return Math.min(tSize, uSiz... | java |
public double score(StringWrapper s, StringWrapper t) {
checkTrainingHasHappened(s,t);
UnitVector sBag = asUnitVector(s);
UnitVector tBag = asUnitVector(t);
if (s.unwrap().equals(t.unwrap())) {
return 1.0;
}
else {
String[] sTokens = getTokenArray(sBag),
tTokens = getTokenA... | java |
private double[] getIDFArray(BagOfTokens bag) {
double[] idfArray = new double[bag.size()];
Iterator it = bag.tokenIterator();
int i = 0;
while (it.hasNext()) {
Token tok = (Token) it.next();
idfArray[i] = bag.getWeight(tok);
i++;
}
return idfArray;
} | java |
private double algorithm1(String[] tTokens, String[] uTokens,
double[] tIdfArray, double[] uIdfArray) {
ArrayList candidateList = obtainCandidateList(tTokens, uTokens, tIdfArray,
uIdfArray);
sortCandidateList(candidateList);
... | java |
private ArrayList obtainCandidateList(String[] tTokens, String[] uTokens,
double[] tIdfArray, double[] uIdfArray) {
ArrayList candidateList = new ArrayList();
double minStringSize = getMinStringSize(tTokens, uTokens);
for (int t = 0; t < tTokens.length; t++) {
... | java |
private void sortCandidateList(ArrayList list) {
java.util.Collections.sort(list, new java.util.Comparator() {
public int compare(Object o1, Object o2) {
// First sort, by score in index
double scoreT = ( (Candidates) o1).getScore(),
scoreU = ( (Candidates) o2).getScore();
... | java |
private double round(double number) {
int round = (int) (number * 1000.00);
double rest = (number * 1000.00) - round;
if (rest >= 0.5) {
round++;
}
return (round / 1000.00);
} | java |
SourcedToken getEquivalentToken(Token tok) {
if (unsourcedTokens.contains(tok.getValue())) {
for (int i=0; i<tokens.length; i++) {
if (tokens[i].getValue().equals(tok.getValue())) {
return tokens[i];
}
}
System.out.println("... | java |
public FSArray getArguments() {
if (Relation_Type.featOkTst && ((Relation_Type)jcasType).casFeat_arguments == null)
jcasType.jcas.throwFeatMissing("arguments", "de.julielab.jules.types.ace.Relation");
return (FSArray)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefValue(addr, ((Relation_Type)jcas... | java |
public String getEntryId() {
if (ResourceEntry_Type.featOkTst && ((ResourceEntry_Type)jcasType).casFeat_entryId == null)
jcasType.jcas.throwFeatMissing("entryId", "de.julielab.jules.types.ResourceEntry");
return jcasType.ll_cas.ll_getStringValue(addr, ((ResourceEntry_Type)jcasType).casFeatCode_entryId);} | java |
public void setEntryId(String v) {
if (ResourceEntry_Type.featOkTst && ((ResourceEntry_Type)jcasType).casFeat_entryId == null)
jcasType.jcas.throwFeatMissing("entryId", "de.julielab.jules.types.ResourceEntry");
jcasType.ll_cas.ll_setStringValue(addr, ((ResourceEntry_Type)jcasType).casFeatCode_entryId, v);... | java |
public String getVersion() {
if (ResourceEntry_Type.featOkTst && ((ResourceEntry_Type)jcasType).casFeat_version == null)
jcasType.jcas.throwFeatMissing("version", "de.julielab.jules.types.ResourceEntry");
return jcasType.ll_cas.ll_getStringValue(addr, ((ResourceEntry_Type)jcasType).casFeatCode_version);} | java |
public void setVersion(String v) {
if (ResourceEntry_Type.featOkTst && ((ResourceEntry_Type)jcasType).casFeat_version == null)
jcasType.jcas.throwFeatMissing("version", "de.julielab.jules.types.ResourceEntry");
jcasType.ll_cas.ll_setStringValue(addr, ((ResourceEntry_Type)jcasType).casFeatCode_version, v);... | java |
public int getLevel() {
if (ListItem_Type.featOkTst && ((ListItem_Type)jcasType).casFeat_level == null)
jcasType.jcas.throwFeatMissing("level", "de.julielab.jules.types.ListItem");
return jcasType.ll_cas.ll_getIntValue(addr, ((ListItem_Type)jcasType).casFeatCode_level);} | java |
public void setLevel(int v) {
if (ListItem_Type.featOkTst && ((ListItem_Type)jcasType).casFeat_level == null)
jcasType.jcas.throwFeatMissing("level", "de.julielab.jules.types.ListItem");
jcasType.ll_cas.ll_setIntValue(addr, ((ListItem_Type)jcasType).casFeatCode_level, v);} | java |
public java.util.List<Object> getListItemOrX() {
if (listItemOrX == null) {
listItemOrX = new ArrayList<Object>();
}
return this.listItemOrX;
} | java |
public void setPolarity(String v) {
if (Event_Type.featOkTst && ((Event_Type)jcasType).casFeat_polarity == null)
jcasType.jcas.throwFeatMissing("polarity", "de.julielab.jules.types.ace.Event");
jcasType.ll_cas.ll_setStringValue(addr, ((Event_Type)jcasType).casFeatCode_polarity, v);} | java |
public String getGenericity() {
if (Event_Type.featOkTst && ((Event_Type)jcasType).casFeat_genericity == null)
jcasType.jcas.throwFeatMissing("genericity", "de.julielab.jules.types.ace.Event");
return jcasType.ll_cas.ll_getStringValue(addr, ((Event_Type)jcasType).casFeatCode_genericity);} | java |
public void setGenericity(String v) {
if (Event_Type.featOkTst && ((Event_Type)jcasType).casFeat_genericity == null)
jcasType.jcas.throwFeatMissing("genericity", "de.julielab.jules.types.ace.Event");
jcasType.ll_cas.ll_setStringValue(addr, ((Event_Type)jcasType).casFeatCode_genericity, v);} | java |
public void setMentions(int i, EventMention v) {
if (Event_Type.featOkTst && ((Event_Type)jcasType).casFeat_mentions == null)
jcasType.jcas.throwFeatMissing("mentions", "de.julielab.jules.types.ace.Event");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(addr, ((Event_Type)jcasType).casFeat... | java |
public static void printTableMeta(String outputDirPath, File pdfFile, String meta) {
try {
File middleDir = new File(outputDirPath, "metadata");
if (!middleDir.exists()) {
middleDir.mkdirs();
}
File tableMetaFile = new File(middleDir, pdfFile.getName() + ".metadata");
Bu... | java |
public static void printStatInfo(String outputDirPath, File pdfFile, int pageNum, int tableNum) {
try {
File classificationData = new File(outputDirPath, "statInfo");
if (!classificationData.exists()) {
classificationData.mkdirs();
}
File fileName = new File(classificationData,... | java |
public String getRelatedArticle() {
if (RelatedArticle_Type.featOkTst && ((RelatedArticle_Type)jcasType).casFeat_relatedArticle == null)
jcasType.jcas.throwFeatMissing("relatedArticle", "de.julielab.jules.types.RelatedArticle");
return jcasType.ll_cas.ll_getStringValue(addr, ((RelatedArticle_Type)jcasType... | java |
public void setRelatedArticle(String v) {
if (RelatedArticle_Type.featOkTst && ((RelatedArticle_Type)jcasType).casFeat_relatedArticle == null)
jcasType.jcas.throwFeatMissing("relatedArticle", "de.julielab.jules.types.RelatedArticle");
jcasType.ll_cas.ll_setStringValue(addr, ((RelatedArticle_Type)jcasType)... | java |
public FSArray getMeSHList() {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_meSHList == null)
jcasType.jcas.throwFeatMissing("meSHList", "de.julielab.jules.types.pubmed.ManualDescriptor");
return (FSArray)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefValue(ad... | java |
public void setMeSHList(FSArray v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_meSHList == null)
jcasType.jcas.throwFeatMissing("meSHList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.ll_cas.ll_setRefValue(addr, ((ManualDescriptor_Type)jcasType).casF... | java |
public MeshHeading getMeSHList(int i) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_meSHList == null)
jcasType.jcas.throwFeatMissing("meSHList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(addr, ((Ma... | java |
public void setMeSHList(int i, MeshHeading v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_meSHList == null)
jcasType.jcas.throwFeatMissing("meSHList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(a... | java |
public FSArray getChemicalList() {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_chemicalList == null)
jcasType.jcas.throwFeatMissing("chemicalList", "de.julielab.jules.types.pubmed.ManualDescriptor");
return (FSArray)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_ge... | java |
public void setChemicalList(FSArray v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_chemicalList == null)
jcasType.jcas.throwFeatMissing("chemicalList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.ll_cas.ll_setRefValue(addr, ((ManualDescriptor_Type)jc... | java |
public Chemical getChemicalList(int i) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_chemicalList == null)
jcasType.jcas.throwFeatMissing("chemicalList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(a... | java |
public void setChemicalList(int i, Chemical v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_chemicalList == null)
jcasType.jcas.throwFeatMissing("chemicalList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getR... | java |
public FSArray getDBInfoList() {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_dBInfoList == null)
jcasType.jcas.throwFeatMissing("dBInfoList", "de.julielab.jules.types.pubmed.ManualDescriptor");
return (FSArray)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefVa... | java |
public void setDBInfoList(FSArray v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_dBInfoList == null)
jcasType.jcas.throwFeatMissing("dBInfoList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.ll_cas.ll_setRefValue(addr, ((ManualDescriptor_Type)jcasType... | java |
public DBInfo getDBInfoList(int i) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_dBInfoList == null)
jcasType.jcas.throwFeatMissing("dBInfoList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(addr, ((M... | java |
public void setDBInfoList(int i, DBInfo v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_dBInfoList == null)
jcasType.jcas.throwFeatMissing("dBInfoList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(... | java |
public FSArray getKeywordList() {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_keywordList == null)
jcasType.jcas.throwFeatMissing("keywordList", "de.julielab.jules.types.pubmed.ManualDescriptor");
return (FSArray)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRe... | java |
public void setKeywordList(FSArray v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_keywordList == null)
jcasType.jcas.throwFeatMissing("keywordList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.ll_cas.ll_setRefValue(addr, ((ManualDescriptor_Type)jcasT... | java |
public Keyword getKeywordList(int i) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_keywordList == null)
jcasType.jcas.throwFeatMissing("keywordList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefValue(addr,... | java |
public void setKeywordList(int i, Keyword v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_keywordList == null)
jcasType.jcas.throwFeatMissing("keywordList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefVa... | java |
public StringArray getGeneSymbolList() {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_geneSymbolList == null)
jcasType.jcas.throwFeatMissing("geneSymbolList", "de.julielab.jules.types.pubmed.ManualDescriptor");
return (StringArray)(jcasType.ll_cas.ll_getFSForRef(jcasTyp... | java |
public void setGeneSymbolList(StringArray v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_geneSymbolList == null)
jcasType.jcas.throwFeatMissing("geneSymbolList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.ll_cas.ll_setRefValue(addr, ((ManualDescript... | java |
public String getGeneSymbolList(int i) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_geneSymbolList == null)
jcasType.jcas.throwFeatMissing("geneSymbolList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_getRefVal... | java |
public void setGeneSymbolList(int i, String v) {
if (ManualDescriptor_Type.featOkTst && ((ManualDescriptor_Type)jcasType).casFeat_geneSymbolList == null)
jcasType.jcas.throwFeatMissing("geneSymbolList", "de.julielab.jules.types.pubmed.ManualDescriptor");
jcasType.jcas.checkArrayBounds(jcasType.ll_cas.ll_... | java |
public Event nextEvent () {
while (_next == null && _ds.hasNext())
_next = createEvent((String)_ds.nextToken());
Event current = _next;
if (_ds.hasNext()) {
_next = createEvent((String)_ds.nextToken());
}
else {
_next = null;
}
return current;
} | java |
public boolean hasNext () {
while (_next == null && _ds.hasNext())
_next = createEvent((String)_ds.nextToken());
return _next != null;
} | java |
public String getTextValue() {
if (BodyCitation_Type.featOkTst && ((BodyCitation_Type)jcasType).casFeat_textValue == null)
jcasType.jcas.throwFeatMissing("textValue", "ch.epfl.bbp.uima.types.BodyCitation");
return jcasType.ll_cas.ll_getStringValue(addr, ((BodyCitation_Type)jcasType).casFeatCode_textValue)... | java |
public void setTextValue(String v) {
if (BodyCitation_Type.featOkTst && ((BodyCitation_Type)jcasType).casFeat_textValue == null)
jcasType.jcas.throwFeatMissing("textValue", "ch.epfl.bbp.uima.types.BodyCitation");
jcasType.ll_cas.ll_setStringValue(addr, ((BodyCitation_Type)jcasType).casFeatCode_textValue, ... | java |
public String getCitationStatus() {
if (Header_Type.featOkTst && ((Header_Type)jcasType).casFeat_citationStatus == null)
jcasType.jcas.throwFeatMissing("citationStatus", "de.julielab.jules.types.pubmed.Header");
return jcasType.ll_cas.ll_getStringValue(addr, ((Header_Type)jcasType).casFeatCode_citationSta... | java |
public void setCitationStatus(String v) {
if (Header_Type.featOkTst && ((Header_Type)jcasType).casFeat_citationStatus == null)
jcasType.jcas.throwFeatMissing("citationStatus", "de.julielab.jules.types.pubmed.Header");
jcasType.ll_cas.ll_setStringValue(addr, ((Header_Type)jcasType).casFeatCode_citationStat... | java |
public Anchor getAnchor() {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_anchor == null)
jcasType.jcas.throwFeatMissing("anchor", "de.julielab.jules.types.ace.EventMention");
return (Anchor)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefValue(addr, ((EventMention_Type... | java |
public void setAnchor(Anchor v) {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_anchor == null)
jcasType.jcas.throwFeatMissing("anchor", "de.julielab.jules.types.ace.EventMention");
jcasType.ll_cas.ll_setRefValue(addr, ((EventMention_Type)jcasType).casFeatCode_anchor, jcasType.l... | java |
public String getLevel() {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_level == null)
jcasType.jcas.throwFeatMissing("level", "de.julielab.jules.types.ace.EventMention");
return jcasType.ll_cas.ll_getStringValue(addr, ((EventMention_Type)jcasType).casFeatCode_level);} | java |
public void setLevel(String v) {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_level == null)
jcasType.jcas.throwFeatMissing("level", "de.julielab.jules.types.ace.EventMention");
jcasType.ll_cas.ll_setStringValue(addr, ((EventMention_Type)jcasType).casFeatCode_level, v);} | java |
public LDC_Scope getLdc_scope() {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_ldc_scope == null)
jcasType.jcas.throwFeatMissing("ldc_scope", "de.julielab.jules.types.ace.EventMention");
return (LDC_Scope)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefValue(addr, ((Ev... | java |
public void setLdc_scope(LDC_Scope v) {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_ldc_scope == null)
jcasType.jcas.throwFeatMissing("ldc_scope", "de.julielab.jules.types.ace.EventMention");
jcasType.ll_cas.ll_setRefValue(addr, ((EventMention_Type)jcasType).casFeatCode_ldc_sc... | java |
public Event getEvent_ref() {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_event_ref == null)
jcasType.jcas.throwFeatMissing("event_ref", "de.julielab.jules.types.ace.EventMention");
return (Event)(jcasType.ll_cas.ll_getFSForRef(jcasType.ll_cas.ll_getRefValue(addr, ((EventMenti... | java |
public void setEvent_ref(Event v) {
if (EventMention_Type.featOkTst && ((EventMention_Type)jcasType).casFeat_event_ref == null)
jcasType.jcas.throwFeatMissing("event_ref", "de.julielab.jules.types.ace.EventMention");
jcasType.ll_cas.ll_setRefValue(addr, ((EventMention_Type)jcasType).casFeatCode_event_ref,... | java |
public static void fixNoSentences(JCas jCas) {
Collection<Sentence> sentences = select(jCas, Sentence.class);
if (sentences.size() == 0) {
String text = jCas.getDocumentText();
Sentence sentence = new Sentence(jCas, 0, text.length());
sentence.addToIndexes();
... | java |
public String getSyn() {
if (GENIAConstituent_Type.featOkTst && ((GENIAConstituent_Type)jcasType).casFeat_syn == null)
jcasType.jcas.throwFeatMissing("syn", "de.julielab.jules.types.GENIAConstituent");
return jcasType.ll_cas.ll_getStringValue(addr, ((GENIAConstituent_Type)jcasType).casFeatCode_syn);} | java |
public void setSyn(String v) {
if (GENIAConstituent_Type.featOkTst && ((GENIAConstituent_Type)jcasType).casFeat_syn == null)
jcasType.jcas.throwFeatMissing("syn", "de.julielab.jules.types.GENIAConstituent");
jcasType.ll_cas.ll_setStringValue(addr, ((GENIAConstituent_Type)jcasType).casFeatCode_syn, v);} | java |
public void writeInferredDistributions(InstanceList instances,
File distributionsFile,
int numIterations, int thinning, int burnIn,
double threshold, int max) throws IOException {
P... | java |
public String getAuthor() {
if (SourceFile_Type.featOkTst && ((SourceFile_Type)jcasType).casFeat_author == null)
jcasType.jcas.throwFeatMissing("author", "de.julielab.jules.types.ace.SourceFile");
return jcasType.ll_cas.ll_getStringValue(addr, ((SourceFile_Type)jcasType).casFeatCode_author);} | java |
public void setAuthor(String v) {
if (SourceFile_Type.featOkTst && ((SourceFile_Type)jcasType).casFeat_author == null)
jcasType.jcas.throwFeatMissing("author", "de.julielab.jules.types.ace.SourceFile");
jcasType.ll_cas.ll_setStringValue(addr, ((SourceFile_Type)jcasType).casFeatCode_author, v);} | java |
public void setUri(String v) {
if (SourceFile_Type.featOkTst && ((SourceFile_Type)jcasType).casFeat_uri == null)
jcasType.jcas.throwFeatMissing("uri", "de.julielab.jules.types.ace.SourceFile");
jcasType.ll_cas.ll_setStringValue(addr, ((SourceFile_Type)jcasType).casFeatCode_uri, v);} | java |
public String getEncoding() {
if (SourceFile_Type.featOkTst && ((SourceFile_Type)jcasType).casFeat_encoding == null)
jcasType.jcas.throwFeatMissing("encoding", "de.julielab.jules.types.ace.SourceFile");
return jcasType.ll_cas.ll_getStringValue(addr, ((SourceFile_Type)jcasType).casFeatCode_encoding);} | java |
public void setEncoding(String v) {
if (SourceFile_Type.featOkTst && ((SourceFile_Type)jcasType).casFeat_encoding == null)
jcasType.jcas.throwFeatMissing("encoding", "de.julielab.jules.types.ace.SourceFile");
jcasType.ll_cas.ll_setStringValue(addr, ((SourceFile_Type)jcasType).casFeatCode_encoding, v);} | java |
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