rem stringlengths 1 226k | add stringlengths 0 227k | context stringlengths 6 326k | meta stringlengths 143 403 | input_ids listlengths 256 256 | attention_mask listlengths 256 256 | labels listlengths 128 128 |
|---|---|---|---|---|---|---|
public NestedKernel(SVMKernel k) { setNestedKernel(k); } | public NestedKernel() {} | public NestedKernel(SVMKernel k) { setNestedKernel(k); } | 50115 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50115/fcbeda1e0bc8dc82a3c505af04fa6bb0330580f8/NestedKernel.java/buggy/src/org/biojava/stats/svm/NestedKernel.java | [
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key.removeFactHandle( handle ); handle.setEqualityKey( null ); if (key.isEmpty( )) { this.tms.remove( key ); } this.handleFactory.destroyFactHandle( handle ); /* check to see if this is a logically asserted object */ this.assertObject( object, false, ( status == EqualityKey.STATED ) ? false : true, rule, activat... | doAssertObject( handle, object, propagationContext ); | public void modifyObject( final FactHandle factHandle, final Object object, final Rule rule, final Activation activation ) throws FactException { try { this.getLock( ).lock( ); final PropagationContex... | 5490 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/5490/262c79407ddf88c74a119d85b4090bd0ac4b0cfd/LeapsWorkingMemory.java/buggy/drools-core/src/main/java/org/drools/leaps/LeapsWorkingMemory.java | [
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valueList = ruby.getScope().getLocalValues(); | valueList = null; | public RubyObject call(Ruby ruby, RubyObject recv, String id, RubyPointer args, boolean noSuper) { if (args == null) { args = new RubyPointer(); } CRefNode savedCref = null; // +++ = null; List valueList = null; ruby.getScope().push(); CRefNode lRefValue = getRefValue(); if (lRefValue != null) { saved... | 47984 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47984/2f13ba47385b7584839c7f6f6f1abfee251cbe53/ScopeNode.java/clean/org/jruby/nodes/ScopeNode.java | [
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Member member = memberCalc.evaluateMember(evaluator); return ascendants(member); | final List list = listCalc.evaluateList(evaluator); return addCalculatedMembers(list, evaluator); | public Calc compileCall(FunCall call, ExpCompiler compiler) { final MemberCalc memberCalc = compiler.compileMember(call.getArg(0)); return new AbstractListCalc(call, new Calc[] {memberCalc}) { public List evaluateList(Evaluator evaluato... | 4891 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/4891/5aca340e1cdbb6179077d96383341db48f0997be/BuiltinFunTable.java/buggy/src/main/mondrian/olap/fun/BuiltinFunTable.java | [
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d.getContentPane().add(t); | d.getContentPane().add(new JScrollPane(t)); | private static Map _getInputTypeToMenuItemsMap(Map inputTypeToModulesMap, final AnalysisServiceDisplay analysisServiceDisplay) { Map inputTypeToMenuItemMap = new HashMap(); for(Iterator it = inputTypeToModulesMap.keySet().iterator(); it.hasNext(); ) { String type = (String) it.next(); List ... | 57344 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57344/1bb63e29dfae36f12b1971b4d3ef35900c4c95e8/SemanticUtil.java/clean/clients/JavaGE/src/org/genepattern/gpge/ui/tasks/SemanticUtil.java | [
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public ReduceTaskRunner(Task task, TaskTracker tracker, Configuration conf) { | public ReduceTaskRunner(Task task, TaskTracker tracker, JobConf conf) { | public ReduceTaskRunner(Task task, TaskTracker tracker, Configuration conf) { super(task, tracker, conf); this.mapOutputFile = new MapOutputFile(); this.mapOutputFile.setConf(conf); } | 53958 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/53958/b0b617a587ab91305418d13a4a4cb95620c55429/ReduceTaskRunner.java/buggy/src/java/org/apache/hadoop/mapred/ReduceTaskRunner.java | [
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return IReportElementConstants.BINDING_COLUMN_PREFIX + "[\"" + DEUtil.escape( columnName ) + "\"]"; | return ExpressionUtil.createJSRowExpression( columnName ); | public static String getColumnExpression( String columnName ) { Assert.isNotNull( columnName ); if ( StringUtil.isBlank( columnName ) ) { return null; } return IReportElementConstants.BINDING_COLUMN_PREFIX + "[\"" + DEUtil.escape( columnName ) + "\"]";//$NON-NLS-1$ //$NON-NLS-2$ } | 15160 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/15160/e263e099ced6cd52030fa439571d59cbf28e3f01/DEUtil.java/buggy/UI/org.eclipse.birt.report.designer.core/src/org/eclipse/birt/report/designer/util/DEUtil.java | [
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public CmsUser lockedBy(String resource) throws CmsException { return (m_driverManager.lockedBy(m_context, addSiteRoot(resource))); | public CmsUser lockedBy(CmsResource resource) throws CmsException { return (m_driverManager.lockedBy(m_context, resource)); | public CmsUser lockedBy(String resource) throws CmsException { return (m_driverManager.lockedBy(m_context, addSiteRoot(resource))); } | 8585 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/8585/13800bc9901ef233804cde14a40105c18bf67203/CmsObject.java/buggy/src/com/opencms/file/CmsObject.java | [
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test.TPrx printer = test.TPrxHelper.checkedCast(base); | mono.TPrx printer = mono.TPrxHelper.checkedCast(base); | main(String[] args) { int status = 0; Ice.Communicator ic = null; try { ic = Ice.Util.initialize(args); Ice.ObjectPrx base = ic.stringToProxy( "T:default -p 10000"); test.TPrx printer = test.TPrxHelper.checkedCast(base); ... | 13273 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/13273/d075eea85d4fb93ed40f6b4f476d90a0bccaf12a/Client.java/buggy/components/common/test/mono/Client.java | [
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suppressionMatcher.addSuppressor( new MethodWarningSuppressor(pattern, clazz, MethodAnnotation.fromVisitedMethod(this))); | suppressionMatcher.addSuppressor(new MethodWarningSuppressor(pattern, clazz, MethodAnnotation.fromVisitedMethod(this))); | private void suppressWarning(String pattern) { String className = getDottedClassName(); ClassAnnotation clazz = new ClassAnnotation(className); if (className.endsWith("package-info") && recursiveDetector == null) suppressionMatcher.addPackageSuppressor( new PackageWarningSuppressor(pattern, getPackag... | 7352 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7352/c94e61968390aa5ab0584a51b7818a39d21ec89b/NoteSuppressedWarnings.java/clean/findbugs/src/java/edu/umd/cs/findbugs/detect/NoteSuppressedWarnings.java | [
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this.native_fd = native_fd; | vmch = channel; | public SourceChannelImpl (SelectorProvider selectorProvider, int native_fd) { super (selectorProvider); this.native_fd = native_fd; } | 1056 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/1056/b178c65c33dbad8dc1c9e11c353aa40d71b61453/PipeImpl.java/buggy/core/src/classpath/gnu/gnu/java/nio/PipeImpl.java | [
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flushLine(fout, indent); | private void printScriptStyle(Out fout, short mode, int indent, Lexer lexer, Node node) { Node content; String commentStart = DEFAULT_COMMENT_START; String commentEnd = DEFAULT_COMMENT_END; boolean hasCData = false; condFlushLine(fout, indent); indent = 0; printTa... | 53077 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/53077/42f83930c2cac62478f42d22f2f41f78870ae98b/PPrint.java/clean/jtidy/src/main/org/w3c/tidy/PPrint.java | [
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final ParsedArguments cmdLine = HELP_INFO.parse(args); final File entry = ARG_DIR.getFile(cmdLine); boolean deleteOk=false; if (!entry.exists()) { System.err.println(entry + " does not exist"); } if(entry.isDirectory()){ final File[] subFile=entry.listFiles(); for(int i=0;i<subFile.length;i++){ final String name=subF... | new DeleteCommand().execute(new CommandLine(args), System.in, System.out, System.err); | public static void main(String[] args) throws Exception { final ParsedArguments cmdLine = HELP_INFO.parse(args); final File entry = ARG_DIR.getFile(cmdLine); boolean deleteOk=false; if (!entry.exists()) { System.err.println(entry + " does not exist"); } // for this time, delete only empty directory (wait ... | 1056 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/1056/2017000443d42345d2722c0e3010c0ee595d8e15/DeleteCommand.java/buggy/fs/src/fs/org/jnode/fs/command/DeleteCommand.java | [
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private static String jsEncode(String string) { if (string == null || string.length() == 0) return "\"\""; int len = string.length(); StringBuffer sb = new StringBuffer(len + 4); sb.append('"'); for (int i = 0; i < len; i += 1) { char c = string.charAt(i); | private static String jsEncode(Object obj) { if (obj == null) return ""; String replacement, str = obj.toString(); StringBuffer sb = null; int i, last, length = str.length(); for (i = 0, last = -1; i < length; i++) { char c = str.charAt(i); | private static String jsEncode(String string) { if (string == null || string.length() == 0) return "\"\""; int len = string.length(); StringBuffer sb = new StringBuffer(len + 4); sb.append('"'); for (int i = 0; i < len; i += 1) { ... | 6965 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/6965/48649d2941e3cd27615cee6e1211811f6dced4ba/Element.java/clean/ZimbraServer/src/java/com/zimbra/soap/Element.java | [
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super(item, "Criticism raised: "); } | super(item, "Criticism raised: "); } | public HistoryItemCritique(ToDoItem item) { super(item, "Criticism raised: "); } | 7166 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7166/ca3bcb5d6dd283c4553bcbfe50b108dc5d499768/HistoryItemCritique.java/clean/src_new/org/argouml/cognitive/critics/HistoryItemCritique.java | [
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String shortCut= newQuickMenu.getShortCutString(); | String shortCut = null; if (newQuickMenu != null) { shortCut = newQuickMenu.getShortCutString(); } | private MenuManager createFileMenu() { MenuManager menu = new MenuManager(IDEWorkbenchMessages.getString("Workbench.file"), IWorkbenchActionConstants.M_FILE); //$NON-NLS-1$ menu.add(new GroupMarker(IWorkbenchActionConstants.FILE_START)); { // create the New submenu, using the same id for it as the New action ... | 55805 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/55805/5fab247f52602e9d6d0d778abdd2a7eac94731b7/WorkbenchActionBuilder.java/buggy/bundles/org.eclipse.ui.ide/src/org/eclipse/ui/internal/ide/WorkbenchActionBuilder.java | [
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if ((fragmentIdentifier == null && s != null) || (s == null && fragmentIdentifier != null) || (s != null && !s.equals(fragmentIdentifier))) { | String s = newURI.getRef(); if ((fragmentIdentifier != s) && ((s == null) || (!s.equals(fragmentIdentifier)))) { | public void openLink(SVGAElement elt) { String show = XLinkSupport.getXLinkShow(elt); String href = XLinkSupport.getXLinkHref(elt); if (show.equals("new")) { fireLinkActivatedEvent(elt, href); if (svgUserAgent != null) { String ol... | 46680 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/46680/e00f09fc15492c247df2aa785334f1d0f7d3e6d7/JSVGComponent.java/clean/sources/org/apache/batik/swing/svg/JSVGComponent.java | [
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if (row==null ) | if (row == null) | static Bundle find(Context context, int id) throws SQLException { TableRow row = DatabaseManager.find(context, "bundle", id); if (row==null ) { return null; } else { return new Bundle(context, row); } } | 47214 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47214/85c7430ba7691f831fafc420459d280408310eb9/Bundle.java/buggy/dspace/src/org/dspace/content/Bundle.java | [
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retEnv = SunRound2Client.sendMsg(util, url, soapAction); | retEnv = client.sendMsg(util, url, soapAction); | public void testR2BaseEchoInteger() throws AxisFault { url = "http://explorer.ne.mediaone.net/app/interop/interop"; soapAction = "http://soapinterop.org/"; util = new Round2EchoIntegerClientUtil(); retEnv = SunRound2Client.sendMsg(util, url, soapAction); tempPath = resFilePath + "... | 49300 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/49300/95f09abc768fee06d65b12836e31273ac0e15eb3/SSRound2InteropTest.java/clean/modules/integration/itest/test/interop/whitemesa/round2/SSRound2InteropTest.java | [
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{ skipWhitespace (); if (tryRead (')')) { if (readBuffer != saved) handler.verror ("Illegal Group/PE nesting"); dataBufferAppend (")*"); tryRead ('*'); return; } skipWhitespace (); while (!tryRead (")")) { require ('|'); dataBufferAppend ('|'); skipWhitespace (); dataBufferAppend (readNmtoken (true)); skipWhitespa... | { skipWhitespace(); if (tryRead(')')) { if (readBuffer != saved) { handler.verror("Illegal Group/PE nesting"); } dataBufferAppend(")*"); tryRead('*'); return; } skipWhitespace(); while (!tryRead(")")) { require('|'); dataBufferAppend('|'); skipWhitespace(); dataBufferAppend(readNmtoken(true)); skipWhitespace(); } ... | private void parseMixed (char saved []) throws Exception { // Check for PCDATA alone. skipWhitespace (); if (tryRead (')')) { // VC: Proper Group/PE Nesting if (readBuffer != saved) handler.verror ("Illegal Group/PE nesting"); dataBufferAppend (")*"); tryRead ('*'); return; } // Parse mix... | 25352 /local/tlutelli/issta_data/temp/all_java2context/java/2006_temp/2006/25352/7fb7568e63c3fe14af521de4699cb37898923ca7/XmlParser.java/clean/libjava/gnu/xml/aelfred2/XmlParser.java | [
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for (Iterator<RefElement> iterator = getInReferences().iterator(); iterator.hasNext();) { RefElement refCaller = iterator.next(); | for (RefElement refCaller : getInReferences()) { | private boolean isCalledOnlyFrom(RefElement refElement, Stack<RefElement> callStack) { if (callStack.contains(this)) return refElement == this ? true : false; if (getInReferences().size() == 0) return false; if (refElement instanceof RefMethod) { RefMethod refMethod = (RefMethod) refElement; for (I... | 56627 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/56627/44b1444ef611a7223c4ad1fa4fc69f6017017008/RefElement.java/clean/source/com/intellij/codeInspection/reference/RefElement.java | [
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if (DEBUG) { | if (debug) { | public byte[] openBytes(String id, int no) throws FormatException, IOException { if (!id.equals(currentId)) initFile(id); if (no < 0 || no >= getImageCount(id)) { throw new FormatException("Invalid image number: " + no); } String code = codec; if (no >= getImageCount(id) - altPlanes) code = al... | 11426 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/11426/91e7b0ac7354ab4613a4d051bb77360de01aecdc/QTReader.java/buggy/loci/formats/in/QTReader.java | [
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out.println("</tr>"); | out.println("</td></tr>"); | public void doGet( HttpServletRequest req, HttpServletResponse res) throws IOException { res.setContentType("text/html"); PrintWriter out=res.getWriter(); out.println("<!DOCTYPE HTML PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\">"); out.println("<html>"); out.println("<head>");... | 12869 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/12869/3a97e6530fe13d8c0788d24f8cd1930684e65afd/CollectionMonitorServlet.java/clean/securityservices/src/org/cougaar/core/security/test/memory/CollectionMonitorServlet.java | [
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for (int i=0; i<getAssociatesLength(); i++) if (areAssociated(i, which)) | for (int i=0; i<taxaA.getNumTaxa(); i++) if (areAssociated(i, which)) | public int getNumAssociates(Taxon taxon){ if (!includedTaxon(taxon)) return 0; int which = taxaA.whichTaxonNumber(taxon); if (which==-1) { //taxon belongs to B; need to look down matrix which = taxaB.whichTaxonNumber(taxon); if (which==-1) return 0; int num = 0; for (int i=0; i<getAssociatesLength(); i... | 57538 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57538/1c557278be9d12149d6383be28e0e55098cc4cb2/TaxaAssociation.java/buggy/trunk/Mesquite Project/Source/mesquite/assoc/lib/TaxaAssociation.java | [
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return new SequenceDBSearchHit(subjectID, | return new SequenceDBSearchHit(subjectSeqID, | private SeqSimilaritySearchHit createHit(Map dataMap, Annotation hitAnnotation) throws BioException { String subjectID = (String) dataMap.get("id"); Double score = (Double) dataMap.get("fa_z-score"); Double eValue = (Double) dataMap.get("fa_expect"); Double pValue = (Double) dataMap... | 50115 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50115/12a0a4afbfea0fc76b108f88303a4155d35e4cd9/FastaSearchBuilder.java/clean/src/org/biojava/bio/program/search/FastaSearchBuilder.java | [
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public ASTFunction(IASTScope scope, String name, int nameEndOffset, List parameters, IASTAbstractDeclaration returnType, IASTExceptionSpecification exception, boolean isInline, boolean isFriend, boolean isStatic, int startOffset, int nameOffset, IASTTemplate ownerTemplate, boolean hasFunctionTryBlock, boolean hasVarArg... | public ASTFunction(IASTScope scope, String name, List parameters, IASTAbstractDeclaration returnType, IASTExceptionSpecification exception, boolean isInline, boolean isFriend, boolean isStatic, int startOffset, int startLine, int nameOffset, int nameEndOffset, IASTTemplate ownerTemplate, boolean hasFunctionTryBlock, bo... | public ASTFunction(IASTScope scope, String name, int nameEndOffset, List parameters, IASTAbstractDeclaration returnType, IASTExceptionSpecification exception, boolean isInline, boolean isFriend, boolean isStatic, int startOffset, int nameOffset, IASTTemplate ownerTemplate, boolean hasFunctionTryBlock, boolea... | 6192 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/6192/a38f5c4f0dd1208b4df07f8a318b103677fbf77a/ASTFunction.java/clean/core/org.eclipse.cdt.core/parser/org/eclipse/cdt/internal/core/parser/ast/quick/ASTFunction.java | [
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d.union(child.getPreferredSize(wHint, hHint)); | if (!getObservingVisibility() || child.isVisible()) d.union(child.getPreferredSize(wHint, hHint)); | protected Dimension calculatePreferredSize(IFigure figure, int wHint, int hHint) { if (wHint > -1) wHint = Math.max(0, wHint - figure.getInsets().getWidth()); if (hHint > -1) hHint = Math.max(0, hHint - figure.getInsets().getHeight()); Dimension d = new Dimension(); List children = figure.getChildren(); IFigure child... | 11225 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/11225/30bbf544ae45984c8a0b3cbe688a552eb69c45eb/StackLayout.java/buggy/org.eclipse.draw2d/src/org/eclipse/draw2d/StackLayout.java | [
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public org.quickfix.field.UnderlyingSecurityIDSource getUnderlyingSecurityIDSource() throws FieldNotFound { org.quickfix.field.UnderlyingSecurityIDSource value = new org.quickfix.field.UnderlyingSecurityIDSource(); | public quickfix.field.UnderlyingSecurityIDSource getUnderlyingSecurityIDSource() throws FieldNotFound { quickfix.field.UnderlyingSecurityIDSource value = new quickfix.field.UnderlyingSecurityIDSource(); | public org.quickfix.field.UnderlyingSecurityIDSource getUnderlyingSecurityIDSource() throws FieldNotFound { org.quickfix.field.UnderlyingSecurityIDSource value = new org.quickfix.field.UnderlyingSecurityIDSource(); getField(value); return value; } | 5926 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/5926/fecc27f98261270772ff182a1d4dfd94b5daa73d/MassQuote.java/buggy/src/java/src/quickfix/fix43/MassQuote.java | [
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} else if (jj_la == 0 && jj_scanpos == jj_lastpos) return false; | if (jj_3R_58()) return true; if (jj_la == 0 && jj_scanpos == jj_lastpos) return false; | final private boolean jj_3R_64() { Token xsp; xsp = jj_scanpos; if (jj_3R_71()) { jj_scanpos = xsp; if (jj_3R_72()) return true; if (jj_la == 0 && jj_scanpos == jj_lastpos) return false; } else if (jj_la == 0 && jj_scanpos == jj_lastpos) return false; return false; } | 9291 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/9291/983675edbbab0e381643fec9c2a3e765c2f88830/Parser.java/buggy/src/java/org/apache/velocity/runtime/parser/Parser.java | [
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AptDispatchRunnable runnable; | APTDispatchRunnable runnable; | private static APTResult runAPT(final List<AnnotationProcessorFactory> factories, IJavaProject javaProj, IFile file, ICompilationUnit compilationUnit ) { AptDispatchRunnable runnable; if ( file != null ) runnable = new AptDispatchRunnable( file, javaProj, factories ); else runnable = new AptDispatchRunn... | 10698 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/10698/cacf81a7137174ebdbae2d8edff3e6a2656a3f91/APTDispatch.java/buggy/org.eclipse.jdt.apt.core/src/org/eclipse/jdt/apt/core/internal/APTDispatch.java | [
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Reader debugReader = new Reader() { Reader myReader = reader; public int read(char cbuf[], int off, int len) throws IOException { int count = myReader.read(cbuf, off, len); if (count > 0) { String str = new String(cbuf, off, count); int index = str.lastIndexOf(">"); if (index != -1) { receivedText.append(str.substrin... | ObservableReader debugReader = new ObservableReader(reader); readerListener = new ReaderListener() { public void read(String str) { int index = str.lastIndexOf(">"); if (index != -1) { receivedText.append(str.substring(0, index + 1)); receivedText.append(NEWLINE); if (str.length() > index) { receivedText.append(str.sub... | private void addBasicPanels() { JPanel allPane = new JPanel(); allPane.setLayout(new GridLayout(2, 1)); tabbedPane.add("All Packets", allPane); tabbedPane.setToolTipTextAt(0, "Sent and received packets processed by Smack"); messagesTable = new DefaultTableModel( ... | 47643 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47643/37a3f14d3b1293770f4fcb7643a31241c2b15ef7/EnhancedDebugger.java/clean/source/org/jivesoftware/smackx/debugger/EnhancedDebugger.java | [
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dataBlockStatus[i].setData(buckets[i]); } for(int i=0;i<checkBlockStatus.length;i++) { checkBlockStatus[i].setData(buckets[i+k]); | Bucket data = buckets[i]; if(data.size() != blockLength) throw new IllegalStateException("Block "+i+": "+data+" : "+dataBlockStatus[i]+" length "+data.size()); dataBlockStatus[i].setData(data); | public void realDecode(SplitfileBlock[] dataBlockStatus, SplitfileBlock[] checkBlockStatus, int blockLength, BucketFactory bf) throws IOException { Logger.minor(this, "Doing decode: "+dataBlockStatus.length+" data blocks, "+checkBlockStatus.length+" check blocks, block length "+blockLength+" with "+this); if(dataBlo... | 50287 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50287/923f3296489fa89e5c0d76399b6de451cd594133/StandardOnionFECCodec.java/buggy/src/freenet/client/StandardOnionFECCodec.java | [
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if(downwards){ for (int k=0;k<numStates;k++) for (int l=0;l<numStates;l++){ prob += ProbsD[k][l]*transitionProbability(i,k,j,l,tree,d); } } else { for (int k=0;k<numStates;k++) for (int l=0;l<numStates;l++) prob += transitionProbability(k,i,l,j,tree,d)*ProbsD[i][j]; } | for (int k=0;k<numStates;k++) for (int l=0;l<numStates;l++){ prob += ProbsD[k][l]*transitionProbability(i,k,j,l,tree,d); } | private double probFromSection(Tree tree, int d, int i, int j, double[][] ProbsD, boolean downwards){ double prob=0; if(downwards){ for (int k=0;k<numStates;k++) for (int l=0;l<numStates;l++){ prob += ProbsD[k][l]*transitionProbability(i,k,j,l,tree,d); } } else { for (int k=0;k<numStates;k++) for ... | 57538 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57538/1544ec88de640940fd8fead2d2e67133b4e37191/PagelMatrixModel.java/clean/trunk/Mesquite Project/Source/mesquite/correl/lib/PagelMatrixModel.java | [
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public void visitType(Type x) { | public void visitType(/*@ non_null */ Type x) { | public void visitType(Type x) { visitASTNode(x); } | 46634 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/46634/95ace042c64a5f2e296b44bf47b1d9b53b361217/RShiftVisitor.java/clean/src/escjava/trunk/ESCTools/Javafe/java/javafe/ast/RShiftVisitor.java | [
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Session session = (Session)getSession(); | public void checkType(StackFrame frame, String type) throws CDIException { if (type != null && type.length() > 0) { Session session = (Session)getSession(); Target target = (Target)frame.getTarget(); Thread currentThread = (Thread)target.getCurrentThread(); StackFrame currentFrame = currentThread.getCurrentSt... | 54911 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54911/cf5df1e48f5b77c48089345334b7da81d9b28061/VariableManager.java/buggy/debug/org.eclipse.cdt.debug.mi.core/cdi/org/eclipse/cdt/debug/mi/core/cdi/VariableManager.java | [
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scheduledStartHour = MylarTaskListPlugin.getMylarCorePrefs().getInt( | scheduledStartHour = MylarTaskListPlugin.getDefault().getPreferenceStore().getInt( | public void propertyChange(PropertyChangeEvent event) { if (event.getProperty().equals(TaskListPreferenceConstants.PLANNING_STARTHOUR) || event.getProperty().equals(TaskListPreferenceConstants.PLANNING_ENDHOUR)) { // event.getProperty().equals(TaskListPreferenceConstants.PLANNING_STARTDAY) scheduledStartHour =... | 51989 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/51989/42ccf4da9457897d8441802439e71116889b11bd/TaskListManager.java/clean/org.eclipse.mylyn.tasks.ui/src/org/eclipse/mylyn/provisional/tasklist/TaskListManager.java | [
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out.write((String)bodyResponse); | out.write(bodyResponse.toString()); | public Object call(Object[] args) { if(body1 != null) { Object bodyResponse = body1.call(); if(bodyResponse instanceof String) { try { out.write((String)bodyResponse); ... | 52953 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52953/03eb7c0b6e4194b14465191a5045e08915a4af07/GroovyPage.java/clean/src/web/org/codehaus/groovy/grails/web/pages/GroovyPage.java | [
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for (Iterator it = table.getColumns().iterator(); it.hasNext();) { recurseFONode( (FONode) it.next() ); | if (table.getColumns() != null) { for (Iterator it = table.getColumns().iterator(); it.hasNext();) { recurseFONode( (FONode) it.next() ); } } else { log.warn("No table-columns found on table. RTF output requires that all" + " table-columns for a table are defined. Output will be incorrect."); | private void recurseFONode(FONode foNode) { invokeDeferredEvent(foNode, true); if (foNode instanceof PageSequence) { PageSequence pageSequence = (PageSequence) foNode; Region regionBefore = pagemaster.getRegion(Constants.FO_REGION_BEFORE); if (regionBefore != null) { ... | 5268 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/5268/760178986bbe20b9b78ed3bd8957dcd22d6f25f5/RTFHandler.java/clean/src/java/org/apache/fop/render/rtf/RTFHandler.java | [
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runInterpreter(args[i], "command line " + i); | runInterpreter(args[i], "command line " + i, new String[0]); | public static void main (String args[]) { System.out.println(); System.out.println("----------------------------------------------------"); System.out.println("--- WARNING this is an ALPHA version of JRuby!!! ---"); System.out.println("----------------------------------------------------... | 45298 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/45298/cf644c556d410c47305ebeba5728efa25f7756dc/Main.java/buggy/org/jruby/Main.java | [
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public void actionPerformed (ActionEvent e) { try { if (documentationWindow==null) documentationWindow = new DocumentationWindow (); documentationWindow.show (); } catch (Exception ex) {ErrorMsg.reportError ("Error", "Unable to show Documentation)",ex);}; | public void actionPerformed(ActionEvent e) { try { if (documentationWindow == null) documentationWindow = new DocumentationWindow(); documentationWindow.show(); } catch (Exception ex) { ErrorMsg.reportError("Error", "Unable to show Documentation)", ex); } | public void actionPerformed (ActionEvent e) { try { if (documentationWindow==null) documentationWindow = new DocumentationWindow (); documentationWindow.show (); } catch (Exception ex) {ErrorMsg.reportError ("Error", "Unable to show Docum... | 7591 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7591/e7311a9aa2ac478953975abaa1c0c14e8201c062/PatchEdit.java/clean/JSynthLib/core/PatchEdit.java | [
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public void setMethodVisibility(IRubyObject[] methods, int noex) { | public void setMethodVisibility(IRubyObject[] methods, Visibility noex) { | public void setMethodVisibility(IRubyObject[] methods, int noex) { if (getRuntime().getSafeLevel() >= 4 && !isTaint()) { throw new RubySecurityException(getRuntime(), "Insecure: can't change method visibility"); } for (int i = 0; i < methods.length; i++) { exportMethod(met... | 47984 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47984/f05423516c2d1bfe54c4363eedb9654f7cfb6898/RubyModule.java/clean/org/jruby/RubyModule.java | [
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TasksUiPlugin.getRepositoryManager().removeRepository(repository, TasksUiPlugin.getDefault().getRepositoriesFilePath()); | TasksUiPlugin.getRepositoryManager().removeRepository(repository, TasksUiPlugin.getDefault().getRepositoriesFilePath()); | protected void tearDown() throws Exception { super.tearDown(); manager.resetTaskList(); TasksUiPlugin.getDefault().getTaskListSaveManager().saveTaskList(true); TasksUiPlugin.getRepositoryManager().removeRepository(repository, TasksUiPlugin.getDefault().getRepositoriesFilePath()); } | 51151 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/51151/1cb1052c30bc9f194fe0dca523c92f432185be83/TaskListManagerTest.java/clean/org.eclipse.mylyn.tasks.tests/src/org/eclipse/mylyn/tasks/tests/TaskListManagerTest.java | [
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addParameter("href", sb.toString()); | protected void evaluateExtraParams() { super.evaluateExtraParams(); //Fix for wwportlet Support -- Added by Henry Hu if (href != null) { String hrefValue = findString(href); String contextPath = request.getContextPath(); StringBuffer sb = new StringBuffer(); ... | 22725 /local/tlutelli/issta_data/temp/all_java2context/java/2006_temp/2006/22725/96799ae5f10383875012683abf8410015d204a27/Href.java/buggy/src/java/com/opensymphony/webwork/components/Href.java | [
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connector, null, UMOEndpoint.ENDPOINT_TYPE_RECEIVER, null); | connector, null, UMOEndpoint.ENDPOINT_TYPE_RECEIVER, 0, null); | public UMOComponent initialiseComponent(byte txBeginAction, EventCallback callback) throws Exception { UMODescriptor descriptor = new MuleDescriptor(); descriptor.setExceptionListener(new DefaultExceptionStrategy()); descriptor.setName("testComponent"); descriptor.setImplementation(JdbcFu... | 2370 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/2370/44e8c7553df229e9bda0006786b4987b8419dcd3/AbstractJdbcTransactionalFunctionalTestCase.java/buggy/tests/integration/src/test/java/org/mule/test/integration/providers/jdbc/AbstractJdbcTransactionalFunctionalTestCase.java | [
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public synchronized Reminder getTransaction() | public Reminder getTransaction() | public synchronized Reminder getTransaction() { return Reminder.getReminderForID(reminderID); } | 11042 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/11042/42f15ce06e127523723133285c793cb25214f02b/ReminderTransfer.java/buggy/trunk/JPAS/src/org/jpas/model/ReminderTransfer.java | [
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namespaceSupport.popContext(); | namespaceSupport.endElement(); | public void readImpl(PipelineContext context, ContentHandler contentHandler) { // Read config input final Config config = (Config) readCacheInputAsObject(context, getInputByName(INPUT_CONFIG), new CacheableInputReader() { public Object read(org.orbeon.oxf.pip... | 57229 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57229/4815b907b90527af06e12476cfece46be4870d75/QNameConverter.java/buggy/src/java/org/orbeon/oxf/processor/converter/QNameConverter.java | [
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String[] strings = NutchConf.get().getStrings("plugin.folders"); | String[] strings = nutchConf.getStrings("plugin.folders"); | private String getPluginFolder() { String[] strings = NutchConf.get().getStrings("plugin.folders"); if (strings == null || strings.length == 0) fail("no plugin directory setuped.."); String name = strings[0]; return PluginManifestParser.getPluginFolder(name).toString(); } | 57484 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57484/329ff64e9d7295aff108f85e9a8103f5e5f8f398/TestPluginSystem.java/buggy/src/test/org/apache/nutch/plugin/TestPluginSystem.java | [
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public Gnu() { super("GNU", 1.0, "GNU provider v1.0 implementing SHA-1, MD5, DSA, RSA, X.509 Certificates and CRLs, PKIX certificate path validators, Collection cert stores, Diffie-Hellman key agreement and key pair generator"); AccessController.doPrivileged (new PrivilegedAction() { public Object run(... | 50763 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50763/5200aefd16debc5177e0a889124f42ee39f14d8c/Gnu.java/buggy/core/src/classpath/gnu/gnu/java/security/provider/Gnu.java | [
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case REF_IFCMP_opcode: s.operator = INT_IFCMP; case INT_IFCMP_opcode: IfCmp.setVal1(s, asRegInt(IfCmp.getClearVal1(s), s, ir)); IfCmp.setVal2(s, asImmediateOrRegInt(IfCmp.getClearVal2(s), s, ir)); break; case INT_IFCMP2_opcode: IfCmp2.setVal1(s, asRegInt(IfCmp2.getClearVal1(s), s, ir)); IfCmp2.setVal2(s, asImmedi... | case LONG_NEG_opcode: case INT_NEG_opcode: s.operator = REF_NEG; break; case LONG_NOT_opcode: case INT_NOT_opcode: s.operator = REF_NOT; break; case LONG_AND_opcode: case INT_AND_opcode: s.operator = REF_AND; case REF_AND_opcode: Binary.setVal2(s, asImmediateOrRegPolymorphic(Binary.getClearVal2(s), s, ir, f... | static void perform(OPT_IR ir) { // This code assumes that INT/LONG constant folding in OPT_Simplifier is enabled. // This greatly reduces the number of cases we have to worry about below. if (!(OPT_Simplifier.CF_INT && OPT_Simplifier.CF_LONG)) { throw new OPT_OptimizingCompilerException("Unexpected co... | 4011 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/4011/7cc93af9d6a5e0b2b46637cb314f477b72c14724/OPT_NormalizeConstants.java/clean/rvm/src/vm/arch/powerPC/compilers/optimizing/ir/conversions/lir2mir/OPT_NormalizeConstants.java | [
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public QueryDescr query() throws RecognitionException { QueryDescr query; Token loc=null; String queryName = null; query = null; try { // C:\Projects\jboss-rules-new\drools-compiler\src\main\resources\org\drools\lang\drl.g:322:17: ( opt_eol loc= 'q... | 6736 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/6736/f57cd683a66080d941264e3f98974908a6a489a0/RuleParser.java/clean/drools-compiler/src/main/java/org/drools/lang/RuleParser.java | [
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if ( DeferredGraphicalViewer.PROPERTY_MARGIN_VISIBILITY.equals( evt.getPropertyName( ) ) ) | if ( DeferredGraphicalViewer.PROPERTY_MARGIN_VISIBILITY .equals( evt.getPropertyName( ) ) ) | public void propertyChange( PropertyChangeEvent evt ) { if ( DeferredGraphicalViewer.PROPERTY_MARGIN_VISIBILITY.equals( evt.getPropertyName( ) ) ) { showMargin = ( (Boolean) evt.getNewValue( ) ).booleanValue( ); refresh( ); markDirty( true ); } } | 5230 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/5230/24637ecc70d1c09ca29010787e8a3b377b2d6876/ReportDesignEditPart.java/clean/UI/org.eclipse.birt.report.designer.ui/src/org/eclipse/birt/report/designer/internal/ui/editors/schematic/editparts/ReportDesignEditPart.java | [
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substitutionGroupElementDeclIndex = | substitutionGroupElementDeclIndex = | private QName traverseElementDecl(Element elementDecl) throws Exception { int contentSpecType = -1; int contentSpecNodeIndex = -1; int typeNameIndex = -1; int scopeDefined = -2; //signal a error if -2 gets gets through //cause scope can never be -2. ... | 6373 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/6373/87731f2b2070ba79da173a5e6be82410b096d7c5/TraverseSchema.java/buggy/src/org/apache/xerces/validators/schema/TraverseSchema.java | [
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int lastNumberTableIndex, Object securityDomain, | Object securityDomain, | InterpreterData(int lastICodeTop, int lastStringTableIndex, int lastNumberTableIndex, Object securityDomain, boolean useDynamicScope, boolean checkThis) { itsICodeTop = lastICodeTop == 0 ? INITIAL_MAX_ICODE_LENGTH : lastICod... | 51275 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/51275/8496f933ce40492352e4565af6fd79ea109a5274/InterpreterData.java/clean/js/rhino/src/org/mozilla/javascript/InterpreterData.java | [
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Object[] adjustmentListeners = adjustmentListenerList.getListenerList(); | Object[] adjustmentListeners = listenerList.getListenerList(); | protected void fireAdjustmentValueChanged(int id, int type, int value) { Object[] adjustmentListeners = adjustmentListenerList.getListenerList(); AdjustmentEvent adjustmentEvent = new AdjustmentEvent(this, AdjustmentEvent.ADJUSTMENT_VALUE_CHANGED, AdjustmentE... | 45163 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/45163/14511e3ad21013e92c6399b2bd2ec09a8263e33a/JScrollBar.java/clean/libjava/javax/swing/JScrollBar.java | [
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return display; } | return display; } | public Display getDisplay() { return display; } | 56152 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/56152/9337b828e86179850647141c34d497be28275ed2/Workbench.java/buggy/bundles/org.eclipse.ui.workbench/Eclipse UI/org/eclipse/ui/internal/Workbench.java | [
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} else if (lvNode.end == index.label) { | } else if (lvNode.end == index.labelNode) { | private void updateLocals(final Index index, final Map locals) { for (int i = 0; i < localVariables.size(); ++i) { LocalVariableNode lvNode = (LocalVariableNode) localVariables.get(i); if (lvNode.start == index.label) { locals.put(new Integer(lvNode.index), lvNode.name); ... | 2697 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/2697/9172c855702891832150db512a17bbe6ab1f046e/DecompiledMethod.java/clean/eclipse/plugin/src/de/loskutov/bco/asm/DecompiledMethod.java | [
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sourceIndexer.removeIndexChangeListener(this); | protected void tearDown() { try { super.tearDown(); sourceIndexer.removeIndexChangeListener(this); } catch (Exception e1) { } //Delete project if (project.exists()) { try { System.gc(); System.runFinalization(); project.delete(true, monitor); } catch (CoreException e) { fail(getMessage(e.getSt... | 54911 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54911/c394f40e489dd37280520439c09530c1c4a9e61f/CSelectionTestsDOMIndexer.java/clean/core/org.eclipse.cdt.ui.tests/ui/org/eclipse/cdt/ui/tests/text/selectiontests/CSelectionTestsDOMIndexer.java | [
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public MDLWriter(Writer out) throws Exception { | public MDLWriter(Writer out) { | public MDLWriter(Writer out) throws Exception { logger = new LoggingTool(this); try { if (out instanceof BufferedWriter) { writer = (BufferedWriter)out; } else { writer = new BufferedWriter(out); } } catch (Exception exc) { } this... | 45254 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/45254/edb48df1ceef540d0a2f05f91afd7b4f69d092d7/MDLWriter.java/buggy/src/org/openscience/cdk/io/MDLWriter.java | [
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String [] options = new String [11]; | String [] options = new String [12]; | public String [] getOptions() { String [] options = new String [11]; int current = 0; if (getMakeBinary()) { options[current++] = "-D"; } if (getUseBetterEncoding()) { options[current++] = "-E"; } if (getUseKononenko()) { options[current++] = "-K"; } if (getFindNumBins()) { ... | 4773 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/4773/16cdf90b8a5a140435505477d1b1227b59215fae/DiscretizeFilter.java/clean/weka/filters/DiscretizeFilter.java | [
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WeblogCategoryData parent = null == cat.getId() ? (WeblogCategoryData)cat.getNewParent() : cat.getParent(); if (null != parent) { List sameNames; try { Session session = ((HibernatePersistenceStrategy)this.strategy).getSession(); Criteria criteria = session.createCriteria(WeblogCategoryAssoc.class); criteria.createAli... | WeblogCategoryData parent = cat.getParent(); if (null != parent) { WeblogCategoryData sibling = null; Iterator siblings = parent.getWeblogCategories().iterator(); while(siblings.hasNext()) { sibling = (WeblogCategoryData) siblings.next(); if(cat.getName().equals(sibling.getName())) { return true; } | public boolean isDuplicateWeblogCategoryName(WeblogCategoryData cat) throws RollerException { // ensure that no sibling categories share the same name WeblogCategoryData parent = null == cat.getId() ? (WeblogCategoryData)cat.getNewParent() : cat.getParent(); if (null !... | 46431 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/46431/318020d151f6e6f69d71c7a211f51dde545c002c/HibernateWeblogManagerImpl.java/buggy/src/org/apache/roller/business/hibernate/HibernateWeblogManagerImpl.java | [
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if (IChemFile.class.isInstance(classObject)) return true; | Class[] interfaces = classObject.getInterfaces(); for (int i=0; i<interfaces.length; i++) { if (IChemFile.class.equals(interfaces[i])) return true; } | public boolean accepts(Class classObject) { if (IChemFile.class.isInstance(classObject)) return true; return false; } | 1306 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/1306/88bfc9fe5f2cc6d9efe9aa5bb99558bde71e619a/Gaussian98Reader.java/buggy/src/org/openscience/cdk/io/Gaussian98Reader.java | [
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if (token == OP_LSS && peek() == '/') return exp; | if (token == EOL_TOKEN || (token == OP_LSS && peek() == '/')) return exp; | Expression parseBinaryExpr(int prio) throws java.io.IOException, SyntaxException { Expression exp; exp = parseUnaryExpr(); for (;;) { if (nesting == 0 && curToken == EOL_TOKEN) return exp; int token = peekOperator(); if (token == OP_LSS && peek() == '/') return exp; // Makes for better error ... | 41089 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/41089/ff027e277c811e0541472619dfd55162353ce4af/XQParser.java/buggy/gnu/xquery/lang/XQParser.java | [
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double tempReal, tempReal2; double sumROC1, periodROC, prevKAMA; int i, today, outIdx, lookbackTotal; int trailingIdx; double trailingValue; | final double constMax = 2.0/(30.0+1.0); final double constDiff = 2.0/(2.0+1.0) - constMax; | public TA_RetCode KAMA(int startIdx, int endIdx, double inReal[], int optInTimePeriod, MInteger outBegIdx, MInteger outNbElement, double outReal[]) { final double constMax = 2.0 / (30.0 + 1.0); final double constDiff = 2.0 / (2.0 + 1.0) - constMax; double tempReal, tempReal2; double sumROC1, periodROC, prevKAM... | 7231 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7231/5df8081f2a7211016256c0f481213a987e02947a/Core.java/clean/ta-lib/java/src/TA/Lib/Core.java | [
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return (encode.nextByte() << 8) + encode.nextByte(); } | return (encode.nextByte() << 8) + encode.nextByte(); } | private static int decodeShortUnsignedBigEndian(PtrList encode) { return (encode.nextByte() << 8) + encode.nextByte(); } | 1060 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/1060/415b1e0db282c02d672a7e34a34a2bea0f69ccb2/Pack.java/clean/src/org/jruby/util/Pack.java | [
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DocumentImpl document = ((LocalXMLResource) resource).getDocument(); | DocumentImpl document; if (resource.getResourceType().equals("XMLResource")) document = ((LocalXMLResource) resource).getDocument(); else document = ((LocalBinaryResource) resource).getBlob(); | public void setPermissions(Resource resource, Permission perm) throws XMLDBException { org.exist.security.SecurityManager manager = pool.getSecurityManager(); DBBroker broker = null; try { broker = pool.get(user); DocumentImpl document = ((LocalXMLResource) resource).getDocument(); if (!(document.getPermissio... | 2909 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/2909/542794bb5fd4ba67897c2c2677f4f663483ba69d/LocalUserManagementService.java/buggy/src/org/exist/xmldb/LocalUserManagementService.java | [
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IRubyObject javaUtilities = runtime.getClasses().getObjectClass().getConstant("JavaUtilities"); | IRubyObject javaUtilities = runtime.getObject().getConstant("JavaUtilities"); | public Object call(Object recv, String method, Object[] args) throws BSFException { try { IRubyObject rubyRecv = recv != null ? JavaUtil.convertJavaToRuby(runtime, recv) : runtime.getTopSelf(); IRubyObject[] rubyArgs = JavaUtil.convertJavaArrayToRuby(runtime, args); // Create... | 47134 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47134/ca6b16e996ea9af83ce593594b9c69b9364a9924/JRubyEngine.java/buggy/src/org/jruby/javasupport/bsf/JRubyEngine.java | [
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private Composite createTitleArea(Composite parent) { // Create the title area which will contain // a title, message, and image. int margins = 2; titleArea = new Composite(parent, SWT.NONE); FormLayout layout = new FormLayout(); layout.marginHeight = margins; layout.marginWidth = margins; titleArea.setLay... | 55805 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/55805/be95edd129a1deef61176d5d63fd605f9dfe18a5/PreferenceDialog.java/buggy/bundles/org.eclipse.jface/src/org/eclipse/jface/preference/PreferenceDialog.java | [
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if (calEvent.isNew() || calEvent.isModified()) { session = openSession(); if (calEvent.isNew()) { CalEvent calEventModel = new CalEvent(); calEventModel.setEventId(calEvent.getEventId()); calEventModel.setGroupId(calEvent.getGroupId()); calEventModel.setCompanyId(calEvent.getCompanyId()); calEventModel.setUserId(calEv... | session = openSession(); session.saveOrUpdate(calEvent); session.flush(); calEvent.setNew(false); | public com.liferay.portlet.calendar.model.CalEvent update( com.liferay.portlet.calendar.model.CalEvent calEvent) throws SystemException { Session session = null; try { if (calEvent.isNew() || calEvent.isModified()) { session = openSession(); if (calEvent.isNew()) { CalEvent calEventModel = new CalEvent... | 57692 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57692/f4d6afc6707f57fd84bf6b624f0c119657b0a766/CalEventPersistence.java/clean/portal-ejb/src/com/liferay/portlet/calendar/service/persistence/CalEventPersistence.java | [
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xsp = jj_scanpos; if (jj_3R_335()) { jj_scanpos = xsp; if (jj_3R_336()) { jj_scanpos = xsp; if (jj_3R_337()) return true; } | while (true) { xsp = jj_scanpos; if (jj_3R_346()) { jj_scanpos = xsp; break; } | final private boolean jj_3R_325() { Token xsp; xsp = jj_scanpos; if (jj_3R_335()) { jj_scanpos = xsp; if (jj_3R_336()) { jj_scanpos = xsp; if (jj_3R_337()) return true; } } return false; } | 11192 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/11192/0b7f9842c42a34509d077a5e1d655daf0b8192d6/Parser.java/clean/dynamicjava/src/koala/dynamicjava/parser/Parser.java | [
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case org.postgis.Geometry.POLYGON : | case org.postgis.Geometry.POLYGON: | protected void writeGeometry(Geometry geom, ValueSetter dest) { final int dimension = getCoordDim(geom); if (dimension < 2 || dimension > 4) { throw new IllegalArgumentException("Unsupported geometry dimensionality: " + dimension); } // write endian flag dest.setByte(de... | 4075 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/4075/41fcfc0c6f5c916cd545baeb76efa9eb43421e15/JtsBinaryWriter.java/clean/jdbc2/jtssrc/org/postgis/jts/JtsBinaryWriter.java | [
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return getUser(user.getUsername()); | public User saveUser(final User user) { if (user.getId() == null) { Long pk = (Long) getSqlMapClientTemplate().queryForObject("getUserId", null); if (pk == null) { pk = new Long(0); ... | 3521 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/3521/5a85c7a969483c66e89f40fc75bcdfc10887d96f/UserDAOiBatis.java/buggy/extras/ibatis/src/dao/org/appfuse/dao/ibatis/UserDAOiBatis.java | [
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if (child_box.clear_left || child_box.clear_right) { | if (child_box.getStyle().isCleared()) { | public static void layoutContent(Context c, Box box, List contentList, Box block) { // prepare for the list items int old_counter = c.getListCounter(); c.setListCounter(0); Iterator contentIterator = contentList.iterator(); while (contentIterator.hasNext()) { Object o =... | 8125 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/8125/d78edbe00854320b48eb4ef97095b253df533dd8/BlockBoxing.java/clean/src/java/org/xhtmlrenderer/layout/BlockBoxing.java | [
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String ds_name = attr.getAlias(); if (ds_name.length() > MAX_DS_NAME_LENGTH) { if (log.isEnabledFor(Priority.WARN)) log.warn("buildDataSourceList: alias '" + attr.getAlias() + "' exceeds 19 char maximum for RRD data source names, truncating."); char[] temp = ds_name.toCharArray(); ds_name = String.copyValueOf(temp, ... | String ds_name = attr.getAlias(); if (ds_name.length() > MAX_DS_NAME_LENGTH) { if (log.isEnabledFor(Priority.WARN)) log.warn("buildDataSourceList: alias '" + attr.getAlias() + "' exceeds 19 char maximum for RRD data source names, truncating."); char[] temp = ds_name.toCharArray(); ds_name = String.copyValueOf(temp, ... | private HashMap buildDataSourceList(String collectionName, List attributeList) { // Log4j category // Category log = ThreadCategory.getInstance(getClass()); // Retrieve the RRD expansion data source list which contains all // the expansion data source's. Use this list as a basis ... | 25465 /local/tlutelli/issta_data/temp/all_java2context/java/2006_temp/2006/25465/1f4f928b8a779619247bb7d93f766dffb9cb8651/JMXCollector.java/clean/src/services/org/opennms/netmgt/collectd/JMXCollector.java | [
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rubyFrame = rubyFrame.getPrev(); | rubyFrame = getRubyFrame().getPrev(); | public RubyObject yield0(RubyObject value, RubyObject self, RubyModule klass, boolean acheck) { RubyObject result = ruby.getNil(); if (!(isBlockGiven() || isFBlockGiven()) || (rubyBlock == null)) { throw new RuntimeException("yield called out of block"); } Ruby... | 47134 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/47134/f220dcff8a7e427e32a7f1f1bc78f38876b83620/RubyInterpreter.java/buggy/org/jruby/interpreter/RubyInterpreter.java | [
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buildFallback(); | if (!buildFallback()) if (_settings.isExploratory()) refreshBuilders(3, 4); else refreshBuilders(1, 4); | public void tunnelFailed(PooledTunnelCreatorConfig cfg) { if (_log.shouldLog(Log.WARN)) _log.warn(toString() + ": Tunnel failed: " + cfg); int remaining = 0; LeaseSet ls = null; synchronized (_tunnels) { _tunnels.remove(cfg); if (_settings.isInbound() && ... | 27493 /local/tlutelli/issta_data/temp/all_java2context/java/2006_temp/2006/27493/ab4f3008cb78a7ef0ea6b25b04e9b6eeb83f8443/TunnelPool.java/buggy/router/java/src/net/i2p/router/tunnel/pool/TunnelPool.java | [
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protected void execute(final IProgressMonitor monitor) throws CoreException { PlatformUI.getWorkbench().getDisplay().syncExec(new Runnable(){ public void run() { BugReportPostHandler form = new BugReportPostHandler(); form.setPrefix(BugReportPostHandler.FORM_PREFIX_BUG_218); form.setPrefix2(Bug... | 51151 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/51151/f1213ea5e2cf811886d1cddc204b0d844e76584d/AbstractBugWizard.java/buggy/org.eclipse.mylyn.bugzilla.ui/src/org/eclipse/mylyn/bugzilla/ui/wizard/AbstractBugWizard.java | [
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public boolean isSet(org.quickfix.field.InstrAttribType field) | public boolean isSet(quickfix.field.InstrAttribType field) | public boolean isSet(org.quickfix.field.InstrAttribType field) { return isSetField(field); } | 8803 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/8803/fecc27f98261270772ff182a1d4dfd94b5daa73d/SecurityDefinition.java/clean/src/java/src/quickfix/fix44/SecurityDefinition.java | [
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} else { return bigNorm(getRuntime(), getValue().pow((int) other.getLongValue())); | public RubyNumeric op_pow(IRubyObject num) { RubyNumeric other = numericValue(num); if (other instanceof RubyFloat) { return RubyFloat.newFloat(getRuntime(), getDoubleValue()).op_pow(other); } else { return bigNorm(getRuntime(), getValue().pow((int) other.getLongValue()));... | 48072 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/48072/1c602493a83e2050f401fa6925ec7e9269b45e4e/RubyBignum.java/buggy/src/org/jruby/RubyBignum.java | [
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long length = (long)getLengthProperty(thisObj); | long length = getLengthProperty(thisObj); | private static String toStringHelper(Context cx, Scriptable thisObj, boolean toSource, boolean toLocale) throws JavaScriptException { /* It's probably redundant to handle long lengths in this * function; StringBuffers are limited to 2^31 in java. ... | 7555 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7555/5f6a565762eea9efee2aee1297e0f938ac7edf63/NativeArray.java/clean/js/rhino/src/org/mozilla/javascript/NativeArray.java | [
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if (jj_scan_token(85)) { | if (jj_3R_277()) { | final private boolean jj_3R_274() { Token xsp; xsp = jj_scanpos; if (jj_scan_token(85)) { jj_scanpos = xsp; if (jj_scan_token(84)) { jj_scanpos = xsp; if (jj_scan_token(91)) { jj_scanpos = xsp; if (jj_scan_token(92)) return true; } } } if (jj_3R_266()) return true; return fal... | 41673 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/41673/d443fc629d3f9538d4772fc74e3c6afa936e3ced/JavaParser.java/buggy/pmd/src/net/sourceforge/pmd/ast/JavaParser.java | [
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Model.getCoreHelper().setStereotype(clone, stereo); | public Object/*MModelElement*/ getElement(Object targetModel) { // // if phantom then // we need to possibly recreate the package structure // in the target model if (thisIsAPhantom && targetModel != null) { Object/*MNamespace*/ targetNS = findN... | 7166 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7166/8ba8acaf4914aba6e4c9d3a3691b9420ba04785f/UMLComboBoxEntry.java/buggy/src_new/org/argouml/uml/ui/UMLComboBoxEntry.java | [
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Float x = new Float((String) metadata.get("X origin (in um)")); Float y = new Float((String) metadata.get("Y origin (in um)")); Float z = new Float((String) metadata.get("Z origin (in um)")); | Float x = (Float) metadata.get("X origin (in um)"); Float y = (Float) metadata.get("Y origin (in um)"); Float z = (Float) metadata.get("Z origin (in um)"); | protected void initFile(String id) throws FormatException, IOException { super.initFile(id); in = new RandomAccessFile(id, "r"); // read in the image header data header = new byte[1024]; in.read(header); int endian = DataTools.bytesToShort(header, 96, 2, true); little = endian == LITTLE_ENDIAN; ... | 49800 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/49800/b64df73743ab9e8bb0b0dee6c322b54174d7eea5/DeltavisionReader.java/clean/loci/formats/DeltavisionReader.java | [
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CVS cvs2 = new CVS(); | CVS cvs2 = new MockCVS("1.11.16"); | public void testGetPropertiesOnlyModifications() throws IOException, ParseException { CVS cvs = new CVS(); cvs.setMailAliases(new Hashtable()); cvs.setProperty("property"); cvs.setPropertyOnDelete("propertyOnDelete"); String logName = "cvslog1-11mods.txt"; Buffer... | 55334 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/55334/1e56bf7eb709dbc4fec58c75db4e833b9a19585c/CVSTest.java/clean/main/test/net/sourceforge/cruisecontrol/sourcecontrols/CVSTest.java | [
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public ISourcePosition getPosition(LexerSource source, ISourcePosition startPosition); | public ISourcePosition getPosition(ISourcePosition startPosition, boolean inclusive); | public ISourcePosition getPosition(LexerSource source, ISourcePosition startPosition); | 48072 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/48072/b1293eda8454686e846e2a9837b348e2983bb423/ISourcePositionFactory.java/buggy/src/org/jruby/lexer/yacc/ISourcePositionFactory.java | [
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decDatas[opposing].data.right.alignment = SWT.CENTER; decDatas[opposing].data.right.control = decData.label; | decDatas[opposing].data.left.alignment = SWT.CENTER; decDatas[opposing].data.left.control = decData.label; | private void updateControlAttachments(int index, FieldDecorationData decData) { FormData formData = (FormData) control.getLayoutData(); int newWidth = widthOf(decData.decoration.getImage()); // opposing represents the location of the decoration above or below // the one in question. int opposing; switch (index) ... | 55805 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/55805/df5bcd37c73174e94a49b4618f9df99ae6e646b3/DecoratedField.java/clean/bundles/org.eclipse.jface/src/org/eclipse/jface/fieldassist/DecoratedField.java | [
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--locked; if(locked==0) this.notifyAll(); if(locked<0) { locked = 0; throw new RuntimeException("INode has been unlocked more than locked"); } } | --locked; if (locked == 0) this.notifyAll(); if (locked < 0) { locked = 0; throw new RuntimeException( "INode has been unlocked more than locked"); } } | public synchronized void decLocked() { --locked; if(locked==0) this.notifyAll(); if(locked<0) { //What!?? locked = 0; throw new RuntimeException("INode has been unlocked more than locked"); } } | 50763 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50763/4fe0410e3d1e4dea160852289195cd6981c0f456/INode.java/buggy/fs/src/fs/org/jnode/fs/ext2/INode.java | [
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"element:CompletionSuperClass.Inner completion:Inner relevance:"+(R_DEFAULT + R_CASE + R_CLASS), | "element:CompletionSuperClass.Inner completion:Inner relevance:"+(R_DEFAULT + R_INTERESTING + R_CASE + R_CLASS), | public void testCompletionSuperType() throws JavaModelException { CompletionTestsRequestor requestor = new CompletionTestsRequestor(); ICompilationUnit cu= getCompilationUnit("Completion", "src", "", "CompletionSuperType.java"); String str = cu.getSource(); String completeBehind = "CompletionSuperClass."; int cursorLoc... | 10698 /local/tlutelli/issta_data/temp/all_java1context/java/2006_temp/2006/10698/19f877ebda77ddbed491e9995da1ca3e7aa021c9/CompletionTests.java/buggy/org.eclipse.jdt.core.tests.model/src/org/eclipse/jdt/core/tests/model/CompletionTests.java | [
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advisor.initialize(getWorkbenchConfigurer()); | advisor.basicInitialize(getWorkbenchConfigurer()); | private boolean init(Display display) { // setup debug mode if required. if (WorkbenchPlugin.getDefault().isDebugging()) { WorkbenchPlugin.DEBUG = true; ModalContext.setDebugMode(true); } // create workbench window manager windowManager = new WindowManager(); IIntroRegistry introRegistry = WorkbenchPlugin.ge... | 56152 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/56152/4c21e5e4020ce9a967fbe0bdd0fcd2fef60efb78/Workbench.java/clean/bundles/org.eclipse.ui.workbench/Eclipse UI/org/eclipse/ui/internal/Workbench.java | [
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if (currentDepth == 1) | nextAtom = bonds[f].getConnectedAtom(root); /* try | static void depthFirstSearch(AtomContainer ac, Atom root, String currentPath, int currentDepth) { Bond[] bonds = ac.getConnectedBonds(root); Atom nextAtom = null; String newPath = null; currentDepth++; for (int f = 0; f < bonds.length; f++) { if (currentDepth == 1) { for (int g = 0; g < ac.getAtomCount();... | 45254 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/45254/6dbd05295b319887961a99946a9a4241c6040802/Fingerprinter.java/buggy/src/org/openscience/cdk/fingerprint/Fingerprinter.java | [
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String configFormat = System.getProperty("org.cougaar.core.node.InitializationComponent"); if (!"XML".equals(configFormat)) { | if (!includesDefaultComponents) { | private List readDescsFromConfig() { List l = new ArrayList(); // get ".ini" descriptions ComponentInitializerService cis = (ComponentInitializerService) sb.getService(this, ComponentInitializerService.class, null); try { ComponentDescription[] descs = cis.getComponentDescriptions( ... | 7981 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/7981/acdaf9aef2111808018ed8104dd26f266592614f/FindComponentsEarly.java/clean/core/src/org/cougaar/core/agent/FindComponentsEarly.java | [
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public DeleteCommand(OsmPrimitive osm) { CollectBackReferencesVisitor v = new CollectBackReferencesVisitor(Main.ds); osm.visit(v); data.addAll(v.data); data.add(osm); | public DeleteCommand(Collection<OsmPrimitive> data) { this.data = data; | public DeleteCommand(OsmPrimitive osm) { CollectBackReferencesVisitor v = new CollectBackReferencesVisitor(Main.ds); osm.visit(v); data.addAll(v.data); data.add(osm); } | 2204 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/2204/368d365905b2cc9169f4c778f2416875cf2d3266/DeleteCommand.java/buggy/src/org/openstreetmap/josm/command/DeleteCommand.java | [
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public void initVolumeDescriptors() throws IOException { int currentLBN = 16; byte[] buff = new byte[ISO9660FileSystem.DefaultLBNSize]; while(true) { this.readFromLBN(currentLBN,0,buff,0,ISO9660FileSystem.DefaultLBNSize); VolumeDescriptor vd = new VolumeDescriptor(this,buff); if(vd.getType() == VolumeDescriptor.Volum... | public void initVolumeDescriptors() throws IOException { int currentLBN = 16; byte[] buff = new byte[ ISO9660FileSystem.DefaultLBNSize]; while (true) { this.readFromLBN(currentLBN, 0, buff, 0, ISO9660FileSystem.DefaultLBNSize); VolumeDescriptor vd = new VolumeDescriptor(this, buff); if (vd.getType() == VolumeDescript... | public void initVolumeDescriptors() throws IOException { int currentLBN = 16; byte[] buff = new byte[ISO9660FileSystem.DefaultLBNSize]; while(true) { // read the LB this.readFromLBN(currentLBN,0,buff,0,ISO9660FileSystem.DefaultLBNSize); VolumeDescriptor vd = new VolumeDescriptor(this,buff); if(vd.getT... | 1056 /local/tlutelli/issta_data/temp/all_java0context/java/2006_temp/2006/1056/aa324658a8e5c25a895787936a31595462ad8442/ISO9660Volume.java/clean/fs/src/fs/org/jnode/fs/iso9660/ISO9660Volume.java | [
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public HostObject(WorldObject parent, BasicMonitoredObject monitoredHost, DataAssociation asso) { | public HostObject(WorldObject parent, BasicMonitoredObject monitoredHost, MonitoredObjectSet objectSet) { | public HostObject(WorldObject parent, BasicMonitoredObject monitoredHost, DataAssociation asso) { super(parent); this.asso = asso; // Test if there is port defined, then remove it to see if hostname exists try { this.hostname = monitoredHost.getFullName(); String sh... | 23362 /local/tlutelli/issta_data/temp/all_java2context/java/2006_temp/2006/23362/3c8dcbce5b12b18f3cb7fa6f4a4cf723face3153/HostObject.java/buggy/src/org/objectweb/proactive/ic2d/data/HostObject.java | [
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this.context = new AuthenticationContext(this); | this.context.init(this); | public UserHandler(HandlerConfiguration handler) { this.handler = handler; this.context = new AuthenticationContext(this); } | 46428 /local/tlutelli/issta_data/temp/all_java4context/java/2006_temp/2006/46428/b956c801de001ce6f7f6836ed94a5d647ac884c9/UserHandler.java/buggy/src/blocks/authentication-fw/java/org/apache/cocoon/webapps/authentication/user/UserHandler.java | [
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