rem stringlengths 0 477k | add stringlengths 0 313k | context stringlengths 6 599k | meta stringlengths 141 403 |
|---|---|---|---|
add(new JSeparator()); | add(new JSeparator(SwingConstants.HORIZONTAL)); | private void buildGUI() { setBorder(BorderFactory.createBevelBorder(BevelBorder.RAISED)); add(properties); add(annotate); add(classify); add(new JSeparator()); add(view); add(zoomIn); add(zoomOut); add(zoomFit); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/95a81c4515a3d8dfe34a789aed7b4aa6557ccc17/PopupMenu.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/view/PopupMenu.java |
if (model.getState() != LOADING_ANNOTATION) throw new IllegalStateException("This method can only be invoked" + " in the LOADING_ANNOTATION state."); if (map == null) throw new IllegalArgumentException("No annotations."); model.setAnnotations(map); view.showAnnotations(); if (model.hasThumbnail()) firePropertyChange(Tr... | if (model.getState() == LOADING_ANNOTATION) { if (map == null) throw new IllegalArgumentException("No annotations."); model.setAnnotations(map); view.showAnnotations(); if (model.hasThumbnail()) firePropertyChange(TreeViewer.THUMBNAIL_LOADING_PROPERTY, null, model.getHierarchyObject()); model.setState(READY); fireState... | public void setAnnotations(Map map) { if (model.getState() != LOADING_ANNOTATION) throw new IllegalStateException("This method can only be invoked" + " in the LOADING_ANNOTATION state."); if (map == null) throw new IllegalArgumentException("No annotations."); mo... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/2cd74b8419df7bd94c53b65634636b9d0775f228/EditorComponent.java/clean/SRC/org/openmicroscopy/shoola/agents/treeviewer/editors/EditorComponent.java |
setLayout(new BorderLayout()); | private void buildUI() { setLayout(new BorderLayout()); tabPane.add(searchView, SEARCH_TAB); tabPane.setTitleAt(SEARCH_TAB, SEARCH); tabPane.add(annotationView, ANNOTATE_TAB); tabPane.setTitleAt(ANNOTATE_TAB, ANNOTATIONS); add(tabPane, BorderLayout.CENTER); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f8f7dcdd74bccad5e7a9d969c7ab47c1cfee6015/ClipBoardUI.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/ClipBoardUI.java | |
add(tabPane, BorderLayout.CENTER); | setViewportView(tabPane); | private void buildUI() { setLayout(new BorderLayout()); tabPane.add(searchView, SEARCH_TAB); tabPane.setTitleAt(SEARCH_TAB, SEARCH); tabPane.add(annotationView, ANNOTATE_TAB); tabPane.setTitleAt(ANNOTATE_TAB, ANNOTATIONS); add(tabPane, BorderLayout.CENTER); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f8f7dcdd74bccad5e7a9d969c7ab47c1cfee6015/ClipBoardUI.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/ClipBoardUI.java |
TreePopupMenu(ClipBoardUI clipBoard) | TreePopupMenu(ClipBoardUI clipBoard, ClipBoardModel model) | TreePopupMenu(ClipBoardUI clipBoard) { if (clipBoard == null) throw new IllegalArgumentException("No clipBoard."); initComponents(); buildUI(); new TreePopupMenuMng(this, clipBoard); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b4992016524102ee0a5c7465d4cc7a94e9ffce2d/TreePopupMenu.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/TreePopupMenu.java |
new TreePopupMenuMng(this, clipBoard); | new TreePopupMenuMng(this, clipBoard, model); | TreePopupMenu(ClipBoardUI clipBoard) { if (clipBoard == null) throw new IllegalArgumentException("No clipBoard."); initComponents(); buildUI(); new TreePopupMenuMng(this, clipBoard); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b4992016524102ee0a5c7465d4cc7a94e9ffce2d/TreePopupMenu.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/TreePopupMenu.java |
pane.addPropertyChangeListener(SearchResultsPane.LOCALIZE_IMAGE_DISPLAY, | pane.addPropertyChangeListener(ClipBoard.LOCALIZE_IMAGE_DISPLAY, | void setSearchResults(Set foundNodes) { pane = new SearchResultsPane(this, foundNodes); pane.addPropertyChangeListener(SearchResultsPane.LOCALIZE_IMAGE_DISPLAY, controller); treeHolder.removeAll(); treeHolder.add(new JScrollPane(pane), BorderLayo... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b4992016524102ee0a5c7465d4cc7a94e9ffce2d/CBSearchTabView.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/CBSearchTabView.java |
treePanel.addListener(new HeatMapTreeListener() { public void nodeSelected(SemanticTypeTree.TreeNode node) { if(!(node instanceof SemanticTypeTree.ElementNode)) { gradPanel.setEnabled(false); } else gradPanel.setEnabled(true); } }); | private void buildUI() { Container contentPane = getContentPane(); contentPane.setLayout(new BorderLayout()); JPanel mainPanel = new JPanel(); mainPanel.setLayout(new BorderLayout()); JScrollPane scrollPane = new JScrollPane(treePanel); scrollPane.setPref... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f2f98380b72e70d51f9ff90f92bae55bf7224fee/HeatMapUI.java/clean/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapUI.java | |
public HeatMapDispatcher(HeatMapModel model, HeatMapStatus status, HeatMapGradient gradient) | public HeatMapDispatcher(HeatMapModel model) | public HeatMapDispatcher(HeatMapModel model, HeatMapStatus status, HeatMapGradient gradient) { this.model = model; this.status = status; this.gradient = gradient; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/28e98417641b00a2e12a791f10f204dc4562dec1/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
this.model = model; this.status = status; this.gradient = gradient; | this.model = model; | public HeatMapDispatcher(HeatMapModel model, HeatMapStatus status, HeatMapGradient gradient) { this.model = model; this.status = status; this.gradient = gradient; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/28e98417641b00a2e12a791f10f204dc4562dec1/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
if (id == 0) { id = getRuntime().getObjectSpace().createId(this); } return getRuntime().newFixnum(id); | return getRuntime().newFixnum(getRuntime().getObjectSpace().idOf(this)); | public synchronized RubyFixnum id() { if (id == 0) { id = getRuntime().getObjectSpace().createId(this); } return getRuntime().newFixnum(id); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/250878be8c9efe07e17604ffe3f6f53c3d98a3e1/RubyObject.java/buggy/src/org/jruby/RubyObject.java |
public long createId(IRubyObject object) { synchronized (identities) { cleanIdentities(); maxId += 2; identities.put(Long.valueOf(maxId), new IdReference(object, maxId, deadIdentityReferences)); return maxId; } | private Long createId(IRubyObject object) { cleanIdentities(); maxId += 2; Long longMaxId = new Long(maxId); identities.put(longMaxId, new IdReference(object, maxId, deadIdentityReferences)); identitiesByObject.put(object, longMaxId); return longMaxId; | public long createId(IRubyObject object) { synchronized (identities) { cleanIdentities(); maxId += 2; // id must always be even identities.put(Long.valueOf(maxId), new IdReference(object, maxId, deadIdentityReferences)); return maxId; } } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/250878be8c9efe07e17604ffe3f6f53c3d98a3e1/ObjectSpace.java/buggy/src/org/jruby/runtime/ObjectSpace.java |
public final int hashCode() { | public int hashCode() { | public final int hashCode() { return (int) RubyNumeric.fix2long(callMethod(getRuntime().getCurrentContext(), "hash")); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/accd69543aeec606dd2490c5f67964fb52c543a5/RubyObject.java/buggy/src/org/jruby/RubyObject.java |
c.addWantedField("images.default_pixels", "ImageServerID"); c.addWantedField("images.default_pixels", "Repository"); c.addWantedField("images.default_pixels.Repository", "ImageServerURL"); | PixelsMapper.fieldsForPixels(c, "images.default_pixels"); | public static Criteria buildDatasetCriteria(int id) { Criteria c = new Criteria(); //Specify which fields we want for the dataset. c.addWantedField("name"); c.addWantedField("description"); c.addWantedField("owner"); c.addWantedField("images"); //Specify which fields we want for the owner. c.addWantedField("o... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
c.addWantedField("images.default_pixels", "ImageServerID"); c.addWantedField("images.default_pixels", "Repository"); c.addWantedField("images.default_pixels.Repository", "ImageServerURL"); | PixelsMapper.fieldsForPixels(c, "images.default_pixels"); | public static Criteria buildDatasetsTree(List datasetIDs) { Criteria c = new Criteria(); c.addWantedField("name"); c.addWantedField("images"); //Specify which fields we want for the images. c.addWantedField("images", "name"); c.addWantedField("images", "created"); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
public static Criteria buildFullUserDatasetsCriteria(int userID) { Criteria c = new Criteria(); //Specify which fields we want for the dataset. c.addWantedField("name"); c.addWantedField("description"); c.addWantedField("owner"); c.addWantedField("images"); UserMapper.objectOwnerCriteria(c); //Specify ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java | ||
c.addWantedField("images.default_pixels", "ImageServerID"); c.addWantedField("images.default_pixels", "Repository"); c.addWantedField("images.default_pixels.Repository", "ImageServerURL"); | PixelsMapper.fieldsForPixels(c, "images.default_pixels"); | public static Criteria buildFullUserDatasetsCriteria(int userID) { Criteria c = new Criteria(); //Specify which fields we want for the dataset. c.addWantedField("name"); c.addWantedField("description"); c.addWantedField("owner"); c.addWantedField("images"); UserMapper.objectOwnerCriteria(c); //Specify ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
c.addWantedField("images.default_pixels", "ImageServerID"); c.addWantedField("images.default_pixels", "Repository"); c.addWantedField("images.default_pixels.Repository", "ImageServerURL"); | PixelsMapper.fieldsForPixels(c, "images.default_pixels"); | public static Criteria buildImagesCriteria(List datasetIDs, Map filters, Map complexFilters) { Criteria c = new Criteria(); //Specify which fields we want for the images. c.addWantedField("images"); c.addWantedField("images", "name"); c.addWantedField("images", "created"... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
images.add(fillImageSummary((Image) i.next())); | images.add(ImageMapper.buildImageSummary((Image) i.next(), null)); | public static void fillDataset(Dataset dataset, DatasetData empty) { //Fill up the DataObject with the data coming from Project. empty.setID(dataset.getID()); empty.setName(dataset.getName()); empty.setDescription(dataset.getDescription()); //Fill up the DataObject with data coming from Experimenter. Experim... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
is = fillImageSummary(img); | is = ImageMapper.buildImageSummary(img, null); | public static void fillDatasetsTree(List datasets, List results, List datasetIDs) { Iterator i = datasets.iterator(), k; Map imagesMap = new HashMap(); DatasetSummaryLinked ds; Dataset d; Image img; ImageSummary is; List ima... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
fillImageSummary(image, is); | ImageMapper.buildImageSummary(image, is); | public static List fillImagesInUserDatasets(List datasets, ImageSummary iProto, List datasetIDs) { List images = new ArrayList(); HashMap map = new HashMap(); Iterator d = datasets.iterator(); Iterator i; Image image; ImageSummary is; Integer i... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
fillImageSummary(image, is); | ImageMapper.buildImageSummary(image, is); | public static List fillListAnnotatedImages(Dataset dataset, ImageSummary iProto, List annotations, List images) { Iterator i = dataset.getImages().iterator(); Image image; ImageSummary is; int id; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/73d218b1f03225366903abf43d50c4be713e767b/DatasetMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/DatasetMapper.java |
public static Map reverseListImageAnnotations(List annotations, int userID) | public static Map reverseListImageAnnotations(List annotations) | public static Map reverseListImageAnnotations(List annotations, int userID) { Map map = new HashMap(); Iterator i = annotations.iterator(); ImageAnnotation annotation; while (i.hasNext()) { annotation = (ImageAnnotation) i.next(); if (userID == an... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/01a27ecff15f0a14ff349eccd47a12de073ae838/AnnotationMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/AnnotationMapper.java |
if (userID == annotation.getModuleExecution().getExperimenter().getID()) map.put(new Integer(annotation.getImage().getID()), annotation); | map.put(new Integer(annotation.getImage().getID()), annotation); | public static Map reverseListImageAnnotations(List annotations, int userID) { Map map = new HashMap(); Iterator i = annotations.iterator(); ImageAnnotation annotation; while (i.hasNext()) { annotation = (ImageAnnotation) i.next(); if (userID == an... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/01a27ecff15f0a14ff349eccd47a12de073ae838/AnnotationMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/AnnotationMapper.java |
public static Map reverseListDatasetAnnotations(List annotations, int userID) | public static Map reverseListDatasetAnnotations(List annotations) | public static Map reverseListDatasetAnnotations(List annotations, int userID) { Map map = new HashMap(); Iterator i = annotations.iterator(); DatasetAnnotation annotation; while (i.hasNext()) { annotation = (DatasetAnnotat... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/01a27ecff15f0a14ff349eccd47a12de073ae838/AnnotationMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/AnnotationMapper.java |
if (userID == annotation.getModuleExecution().getExperimenter().getID()) map.put(new Integer(annotation.getDataset().getID()), | map.put(new Integer(annotation.getDataset().getID()), | public static Map reverseListDatasetAnnotations(List annotations, int userID) { Map map = new HashMap(); Iterator i = annotations.iterator(); DatasetAnnotation annotation; while (i.hasNext()) { annotation = (DatasetAnnotat... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/01a27ecff15f0a14ff349eccd47a12de073ae838/AnnotationMapper.java/buggy/SRC/org/openmicroscopy/shoola/env/data/map/AnnotationMapper.java |
re.setRubyClass((RubyClass) recv); | re.setInternalClass((RubyClass) recv); | public static RubyRegexp newInstance(IRubyObject recv, IRubyObject[] args) { RubyRegexp re = new RubyRegexp(recv.getRuntime()); re.setRubyClass((RubyClass) recv); re.initialize(args); return re; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/f235ab756f32ea9496f8f880066b46ad95ebb692/RubyRegexp.java/buggy/org/jruby/RubyRegexp.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getChainExecutions() { long start; // if we're done, go for it. if (chainExecutions != null) { return chainExecutions.getExecutions(); } if (gettingExecutions == false) { if (ChainBuilderAgent.DEBUG) { start = System.currentTimeMillis(); } gettingExecutions = true; retrieveChain... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getChainExecutions() { long start; // if we're done, go for it. if (chainExecutions != null) { return chainExecutions.getExecutions(); } if (gettingExecutions == false) { if (ChainBuilderAgent.DEBUG) { start = System.currentTimeMillis(); } gettingExecutions = true; retrieveChain... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
public Collection getChainExecutionsByChainID(int id) { | public ChainExecutionsByModuleID getChainExecutionsByChainID(int id) { | public Collection getChainExecutionsByChainID(int id) { if (chainExecutions != null) return chainExecutions.getChainExecutionsByChainID(id); return null; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getChains() { Collection res = null; long start; // if we're done, go for it. if (chainHash != null && chainHash.size() > 0) { res = chainHash.values(); } else { if (gettingChains == false) { if (ChainBuilderAgent.DEBUG) { start = System.currentTimeMillis(); } gettingChains =... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getChains() { Collection res = null; long start; // if we're done, go for it. if (chainHash != null && chainHash.size() > 0) { res = chainHash.values(); } else { if (gettingChains == false) { if (ChainBuilderAgent.DEBUG) { start = System.currentTimeMillis(); } gettingChains =... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getModuleCategories() { // if we're done, go for it. if (moduleCategoryHash != null && moduleCategoryHash.size() > 0) return moduleCategoryHash.values(); if (loadingModuleCategories == false) { long start = System.currentTimeMillis(); loadingModuleCategories = true; retrieveModuleCat... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (ChainBuilderAgent.DEBUG) { | if (ChainBuilderAgent.DEBUG_TIMING) { | public Collection getModules() { // if we're done, go for it. if (moduleHash != null && moduleHash.size() > 0) return moduleHash.values(); if (loadingModules == false) { long start = System.currentTimeMillis(); loadingModules = true; retrieveModules(); // retrieveCategories(); loadingModules = fals... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
if (name.compareTo(chain.getName()) == 0) | if (name.compareToIgnoreCase(chain.getName()) == 0) | public boolean hasChainWithName(String name) { Collection chains = getChains(); Iterator iter = chains.iterator(); LayoutChainData chain; while (iter.hasNext()) { chain = (LayoutChainData) iter.next(); if (name.compareTo(chain.getName()) == 0) return true; } return false; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f076b57bded6ef818272bceb94e18d5f7ab5e321/ChainDataManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ChainDataManager.java |
defineMethod("crypt", Arity.singleArgument()); | protected void initializeClass() { includeModule(getRuntime().getModule("Comparable")); includeModule(getRuntime().getModule("Enumerable")); addMethod("<=>", op_cmp); addMethod("==", equal); addMethod("===", veryEqual); addMethod("+", op_plus); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/9be47462f004ba9a9f729a46448fde9e304fe848/StringMetaClass.java/buggy/src/org/jruby/runtime/builtin/meta/StringMetaClass.java | |
ruby.defineGlobalFunction("open", CallbackFactory.getSingletonMethod(RubyGlobal.class, "open", RubyString.class)); | ruby.defineGlobalFunction("open", CallbackFactory.getOptSingletonMethod(RubyGlobal.class, "open")); | public static void createGlobals(Ruby ruby) { StringSetter stringSetter = new StringSetter(); LastlineAccessor lastlineAccessor = new LastlineAccessor(); SafeAccessor safeAccessor = new SafeAccessor(); ruby.defineHookedVariable("$/", RubyString.newString(ruby, "\n"), null, stringSetter);... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/7f0711e7cbb2b441d095c8d8c0838be2b630638c/RubyGlobal.java/clean/org/jruby/RubyGlobal.java |
public static RubyObject open(Ruby ruby, RubyObject recv, RubyString filename) { if (filename.toString().startsWith("|")) { | public static RubyObject open(Ruby ruby, RubyObject recv, RubyObject[] args) { if (args[0].toString().startsWith("|")) { | public static RubyObject open(Ruby ruby, RubyObject recv, RubyString filename) { if (filename.toString().startsWith("|")) { // +++ return ruby.getNil(); // --- } return RubyFile.open(ruby, ruby.getClasses().getFileClass(), new RubyObject[] { filename }); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/7f0711e7cbb2b441d095c8d8c0838be2b630638c/RubyGlobal.java/clean/org/jruby/RubyGlobal.java |
return RubyFile.open(ruby, ruby.getClasses().getFileClass(), new RubyObject[] { filename }); | return RubyFile.open(ruby, ruby.getClasses().getFileClass(), args); | public static RubyObject open(Ruby ruby, RubyObject recv, RubyString filename) { if (filename.toString().startsWith("|")) { // +++ return ruby.getNil(); // --- } return RubyFile.open(ruby, ruby.getClasses().getFileClass(), new RubyObject[] { filename }); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/7f0711e7cbb2b441d095c8d8c0838be2b630638c/RubyGlobal.java/clean/org/jruby/RubyGlobal.java |
context.put ("OWNM", new ObjectWithNullMethod()); | public void stuffContext (Context context) throws Exception { context.setEvaluationExceptionHandler ( new CrankyEvaluationExceptionHandler(_wm.getBroker())); context.put ("TestObject", new TestObject()); context.put ("NullTestObject", new NullTestObject()); context.put("enum",new T... | 52513 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52513/ff709ec8523aa5b42a000462169b11be88cd46de/TestCrankyEEH.java/buggy/webmacro/test/unit/org/webmacro/template/TestCrankyEEH.java | |
Collection packages; | SortedSet packages; | private void generateOverview(PackageData packageData) throws IOException { Iterator iter; String filename; if (packageData == null) { filename = "frame-summary.html"; } else { filename = "frame-summary-" + packageData.getName() + ".html"; } File file = new File(destinationDir, filename); PrintStream out... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
packages = projectData.getChildren(); | packages = projectData.getPackages(); | private void generateOverview(PackageData packageData) throws IOException { Iterator iter; String filename; if (packageData == null) { filename = "frame-summary.html"; } else { filename = "frame-summary-" + packageData.getName() + ".html"; } File file = new File(destinationDir, filename); PrintStream out... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
sourceFiles = projectData.getSourceFiles(); | PackageData defaultPackage = (PackageData)projectData .getChild(""); if (defaultPackage != null) { sourceFiles = defaultPackage.getSourceFiles(); } else { sourceFiles = new TreeSet(); } | private void generateOverview(PackageData packageData) throws IOException { Iterator iter; String filename; if (packageData == null) { filename = "frame-summary.html"; } else { filename = "frame-summary-" + packageData.getName() + ".html"; } File file = new File(destinationDir, filename); PrintStream out... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
Iterator iter = projectData.getChildren().iterator(); | Iterator iter = projectData.getPackages().iterator(); | private void generateOverviews() throws IOException { generateOverview(null); Iterator iter = projectData.getChildren().iterator(); while (iter.hasNext()) { PackageData packageData = (PackageData)iter.next(); generateOverview(packageData); } } | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
SortedSet sortedPackages = new TreeSet(); sortedPackages.addAll(projectData.getChildren()); Iterator iter = sortedPackages.iterator(); | Iterator iter = projectData.getPackages().iterator(); | private void generatePackageList() throws IOException { File file = new File(destinationDir, "frame-packages.html"); PrintStream out = null; try { out = new PrintStream(new FileOutputStream(file)); out.println("<html>"); out.println("<head>"); out.println("<title>Coverage Report</title>"); out .print... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
Collection sourceFiles; | SortedSet sourceFiles; | private void generateSourceFileList(PackageData packageData) throws IOException { String filename; Collection sourceFiles; if (packageData == null) { filename = "frame-sourcefiles.html"; sourceFiles = projectData.getSourceFiles(); } else { filename = "frame-sourcefiles-" + packageData.getName() + ".html... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
Map sortedSourceFileList = new TreeMap(); | private void generateSourceFileList(PackageData packageData) throws IOException { String filename; Collection sourceFiles; if (packageData == null) { filename = "frame-sourcefiles.html"; sourceFiles = projectData.getSourceFiles(); } else { filename = "frame-sourcefiles-" + packageData.getName() + ".html... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java | |
{ SourceFileData sourceFileData = (SourceFileData)iter.next(); sortedSourceFileList.put(sourceFileData.getBaseName(), sourceFileData); } for (Iterator iter = sortedSourceFileList.values().iterator(); iter .hasNext();) | private void generateSourceFileList(PackageData packageData) throws IOException { String filename; Collection sourceFiles; if (packageData == null) { filename = "frame-sourcefiles.html"; sourceFiles = projectData.getSourceFiles(); } else { filename = "frame-sourcefiles-" + packageData.getName() + ".html... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java | |
Iterator iter = projectData.getChildren().iterator(); | Iterator iter = projectData.getPackages().iterator(); | private void generateSourceFileLists() throws IOException { generateSourceFileList(null); Iterator iter = projectData.getChildren().iterator(); while (iter.hasNext()) { PackageData packageData = (PackageData)iter.next(); generateSourceFileList(packageData); } } | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
ret.append("<td class=\"value\">" + packageData.getChildren().size() | ret.append("<td class=\"value\">" + packageData.getNumberOfChildren() | private String generateTableRowForPackage(PackageData packageData) { StringBuffer ret = new StringBuffer(); String url1 = "frame-summary-" + packageData.getName() + ".html"; String url2 = "frame-sourcefiles-" + packageData.getName() + ".html"; double lineCoverage = -1; double branchCoverage = -1; double ccn = Ut... | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/7f42310aa94d3450acefa63804376619941a31c5/HTMLReport.java/clean/cobertura/src/net/sourceforge/cobertura/reporting/html/HTMLReport.java |
return getClasses().size(); | return this.classes.size(); | public int getNumberOfClasses() { return getClasses().size(); } | 50197 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50197/2d04adc2554406c41824d5b965907076ecdceb80/ProjectData.java/buggy/cobertura/src/net/sourceforge/cobertura/coveragedata/ProjectData.java |
super(parameters); | super( defs, parameters ); | public PojosFindHierarchiesQueryDefinition(QueryParameter... parameters) { super(parameters); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f990a7d35ce265e182121d562725175896db41f4/PojosFindHierarchiesQueryDefinition.java/clean/components/server/src/ome/services/query/PojosFindHierarchiesQueryDefinition.java |
SemanticType parentType = parentNode.getType(); String name = parentType.getName(); attributeName = name; elementName = selectedNode.getFQName(); | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java | |
Map imageIDMap = source.getImageDataMap(); List imageIDList = new ArrayList(imageIDMap.keySet()); Collections.sort(imageIDList); if(status != null) { status.showMessage("Loading "+name+" attributes..."); } | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java | |
List attributeList = sts.retrieveImageAttributes(name,selectedNode.getDBName(), imageIDList); for(Iterator iter = attributeList.iterator(); iter.hasNext();) | for(int i=0;i<hierarchyList.size();i++) | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
Attribute attribute = (Attribute)iter.next(); int imageID = attribute.getImage().getID(); ThumbnailDataModel tdm = (ThumbnailDataModel)imageIDMap.get(new Integer(imageID)); AttributeMap attrMap = tdm.getAttributeMap(); attrMap.putAttribute(attribute); | SemanticTypeTree.TypeNode ancestor = (SemanticTypeTree.TypeNode)hierarchyList.get(i); SemanticType parentType = ancestor.getType(); String attributeName = parentType.getName(); List imageIDList = new ArrayList(imageIDMap.keySet()); Collections.sort(imageIDList); List attributeList = sts.retrieveImageAttributes(attribu... | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
if(status != null) { status.showMessage("Loaded "+name+" attributes."); } | SemanticTypeTree.TypeNode topNode = (SemanticTypeTree.TypeNode)hierarchyList.get(0); attributeName = topNode.getName(); elementName = selectedNode.getFQName(); | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
status.showMessage("could not retrieve "+name+" data."); | status.showMessage("could not retrieve data."); | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
status.showMessage("could not retrieve "+name+" data."); | status.showMessage("could not retrieve data."); | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
notifyLoadFinished(); loadInProgress = false; | public void run() { if(model == null) return; if(selectedNode == null) return; if(!(selectedNode instanceof SemanticTypeTree.ElementNode) || selectedNode.getFQName() == null) { fireModeCancel(); currentMethod = null; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java | |
System.err.println("analyze: ["+attribute+","+elementName+"]"); | private void analyzeInformation(String attribute, String elementName) { BrowserModel browserModel = model.getInfoSource(); List thumbnails = browserModel.getThumbnails(); Thumbnail[] ts = new Thumbnail[thumbnails.size()]; thumbnails.toArray(ts); double[] stats = RangeChecker.ge... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java | |
LoaderThread thread = new LoaderThread(node); thread.start(); | if(!loadInProgress) { LoaderThread thread = new LoaderThread(node); thread.start(); } | public void nodeSelected(SemanticTypeTree.TreeNode node) { if(model == null || node == null) { return; } LoaderThread thread = new LoaderThread(node); thread.start(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b50398c0db3353156748a8d1155216615e5ba5d0/HeatMapDispatcher.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapDispatcher.java |
Paint p = (Paint)thumbnailColorMap.get(t); | Paint p = (Paint)thumbnailColorMap.get(t.getModel()); | public static PaintMethod getPaintMethod(final HeatMapMode mode, final String attributeName, final String elementName, final Scale scale, fi... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f2f98380b72e70d51f9ff90f92bae55bf7224fee/HeatMapPMFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapPMFactory.java |
thumbnailColorMap.put(tdm,color); | Color alphaColor = new Color(color.getRed(),color.getGreen(), color.getBlue(),128); thumbnailColorMap.put(tdm,alphaColor); | public static PaintMethod getPaintMethod(final HeatMapMode mode, final String attributeName, final String elementName, final Scale scale, fi... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f2f98380b72e70d51f9ff90f92bae55bf7224fee/HeatMapPMFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/HeatMapPMFactory.java |
if(min > max || min == max) | if(min > max) | public LogarithmicScale(double min, double max) { if(min > max || min == max) { throw new IllegalArgumentException("max cannot <= min"); } this.min = min; this.max = max; logMin = Math.log(min); logMax = Math.log(max); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/bb13c9484826e4d7b149c8ce9e1aa9a3fc55a6d2/LogarithmicScale.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/LogarithmicScale.java |
else if(min == max) { max = min + 0.0001; } | public LogarithmicScale(double min, double max) { if(min > max || min == max) { throw new IllegalArgumentException("max cannot <= min"); } this.min = min; this.max = max; logMin = Math.log(min); logMax = Math.log(max); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/bb13c9484826e4d7b149c8ce9e1aa9a3fc55a6d2/LogarithmicScale.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/heatmap/LogarithmicScale.java | |
if (ChainBuilderAgent.DEBUG) { long end; end = System.currentTimeMillis()-start; System.err.println("time to layout chains is "+end); } | public void buildGUI() { Container content = getContentPane(); content.setLayout(new BorderLayout()); chainCanvas = new ChainPaletteCanvas(dataManager); chainCanvas.setContents(dataManager.getChains()); chainCanvas.layoutContents(); chainCanvas.completeInitialization(); setSize(new Dimension(ModulePaletteW... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/a806bf744289bb0eed666b235887c8680d549d94/ChainPaletteWindow.java/buggy/SRC/org/openmicroscopy/shoola/agents/chainbuilder/ui/ChainPaletteWindow.java | |
classLoader = new MultiParentClassLoader(applicationContext.getDisplayName(), urls, getClass().getClassLoader()); | ClassLoader parentLoader = getClassLoader(applicationContext); classLoader = new MultiParentClassLoader(applicationContext.getDisplayName(), urls, parentLoader); | public void preprocess(SpringApplicationContext applicationContext, XmlBeanDefinitionReader reader, Document document) { // determine the classLoader ClassLoader classLoader; NodeList classpathElements = document.getDocumentElement().getElementsByTagName("classpath"); if (classpathElemen... | 52533 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52533/73f22ff65e8765766e6281be7318b55aa3917704/ClassLoaderXmlPreprocessor.java/buggy/xbean-server/src/main/java/org/apache/xbean/server/spring/configuration/ClassLoaderXmlPreprocessor.java |
bean.setAutoCreateResource(isAutoCreateResource()); | public ContentItem loadContentItem(String itemResourcePath) { try { ArticleItemBean bean = new ArticleItemBean(); bean.load(itemResourcePath); return bean; } catch (Exception e) { e.printStackTrace(); } return null; } | 57000 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57000/44c7553551d463f44b7cb7cf5d0a43b62412701b/ArticleItemViewer.java/buggy/src/java/com/idega/block/article/component/ArticleItemViewer.java | |
case M_HASH: return hash(); | case M_HASH: return hash(); case M_ID2NAME: return id2name(); | public RubyObject callIndexed(int index, RubyObject[] args) { switch (index) { case M_TO_F: return to_f(); case M_TO_S: return to_s(); case M_OP_LSHIFT: return op_lshift(args[0]); case M_OP_RSHIFT: return op_rshift(args[0]); case ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/a387d516d26e5f7ff453c52c2282ee687da0a99b/RubyFixnum.java/buggy/org/jruby/RubyFixnum.java |
fixnumClass.defineMethod("hash", IndexedCallback.create(M_HASH, 0)); | fixnumClass.defineMethod("hash", IndexedCallback.create(M_HASH, 0)); fixnumClass.defineMethod("id2name", IndexedCallback.create(M_ID2NAME, 0)); | public static RubyClass createFixnumClass(Ruby ruby) { RubyClass fixnumClass = ruby.defineClass("Fixnum", ruby.getClasses().getIntegerClass()); fixnumClass.includeModule(ruby.getClasses().getPrecisionModule()); fixnumClass.defineSingletonMethod("induced_from", CallbackFactory.getSingletonMethod... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/a387d516d26e5f7ff453c52c2282ee687da0a99b/RubyFixnum.java/buggy/org/jruby/RubyFixnum.java |
RubyClass nameError = defineClass("NameError", standardError); | RubyClass nameError = RubyNameError.createNameErrorClass(this, standardError); | private void initCoreClasses() { ObjectMetaClass objectMetaClass = new ObjectMetaClass(this); objectMetaClass.initializeClass(); objectClass = objectMetaClass; objectClass.setConstant("Object", objectClass); RubyClass moduleClass = new ModuleMetaClass(this, objectClass); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/1278c5bb3507a052d150d814f15453542ae41aed/Ruby.java/clean/src/org/jruby/Ruby.java |
public RaiseException newNameError(String message) { return newRaiseException(getClass("NameError"), message); | public RaiseException newNameError(String message, String name) { return new RaiseException(new RubyNameError(this, this.getClass("NameError"), message, name), true); | public RaiseException newNameError(String message) { return newRaiseException(getClass("NameError"), message); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/1278c5bb3507a052d150d814f15453542ae41aed/Ruby.java/clean/src/org/jruby/Ruby.java |
public RaiseException newNoMethodError(String message) { return newRaiseException(getClass("NoMethodError"), message); | public RaiseException newNoMethodError(String message, String name) { return new RaiseException(new RubyNameError(this, this.getClass("NoMethodError"), message, name), true); | public RaiseException newNoMethodError(String message) { return newRaiseException(getClass("NoMethodError"), message); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/1278c5bb3507a052d150d814f15453542ae41aed/Ruby.java/clean/src/org/jruby/Ruby.java |
if (classname.startsWith("-e")) { classname = classname.replaceAll("-e", "DashE"); } | public String[] compile(String classname, String sourceName, Node node) { cv = new ClassWriter(true); classWriters.put(classname, cv); this.classname = classname; this.sourceName = sourceName; cv.visit(Opcodes.V1_2, Opcodes.ACC_PUBLIC + Opcodes.ACC_SUPER, classname,... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/1a9bdcaf49f77f5c15fe4d5f69d5815c92686aca/InstructionCompiler2.java/buggy/src/org/jruby/ast/executable/InstructionCompiler2.java | |
return "CategoryGroup"+(attributeId==null ? ":Hash"+this.hashCode() : ":"+attributeId); | return "CategoryGroup"+(attributeId==null ? ":Hash_"+this.hashCode() : ":Id_"+attributeId); | public String toString(){ return "CategoryGroup"+(attributeId==null ? ":Hash"+this.hashCode() : ":"+attributeId); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/51a3c546dfc7a7a98b29771a459df19094fc5b51/CategoryGroup.java/clean/components/common/src/ome/model/CategoryGroup.java |
Criteria c = session.createCriteria(target); | Criteria ann = session.createCriteria(target); ann.createAlias("details.creationEvent", "ann_create"); ann.createAlias("details.updateEvent", "ann_update"); ann.setResultTransformer(Criteria.DISTINCT_ROOT_ENTITY); ann.add(Restrictions.in(path+".id",(Collection) value(IDS))); | protected void buildQuery(Session session) throws HibernateException, SQLException { PojoOptions po = new PojoOptions((Map) value(OPTIONS)); Class k = (Class) value(CLASS); if ( ! typeToAnnotationType.containsKey( k )) { throw new IllegalArgumentException( ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/e7211bef67998900c29cd33507ee459182f5fe34/PojosFindAnnotationsQueryDefinition.java/buggy/components/server/src/ome/services/query/PojosFindAnnotationsQueryDefinition.java |
c.createCriteria(path,LEFT_JOIN); c.setResultTransformer(Criteria.DISTINCT_ROOT_ENTITY); c.add(Restrictions.in(path+".id",(Collection) value(IDS))); | Criteria obj = ann.createCriteria(path,LEFT_JOIN); obj.createAlias("details.creationEvent", "obj_create"); obj.createAlias("details.updateEvent", "obj_update"); | protected void buildQuery(Session session) throws HibernateException, SQLException { PojoOptions po = new PojoOptions((Map) value(OPTIONS)); Class k = (Class) value(CLASS); if ( ! typeToAnnotationType.containsKey( k )) { throw new IllegalArgumentException( ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/e7211bef67998900c29cd33507ee459182f5fe34/PojosFindAnnotationsQueryDefinition.java/buggy/components/server/src/ome/services/query/PojosFindAnnotationsQueryDefinition.java |
c.add(Restrictions.in("details.id", annotatorIds )); | ann.add(Restrictions.in("details.id", annotatorIds )); | protected void buildQuery(Session session) throws HibernateException, SQLException { PojoOptions po = new PojoOptions((Map) value(OPTIONS)); Class k = (Class) value(CLASS); if ( ! typeToAnnotationType.containsKey( k )) { throw new IllegalArgumentException( ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/e7211bef67998900c29cd33507ee459182f5fe34/PojosFindAnnotationsQueryDefinition.java/buggy/components/server/src/ome/services/query/PojosFindAnnotationsQueryDefinition.java |
setCriteria( c ); | setCriteria( ann ); | protected void buildQuery(Session session) throws HibernateException, SQLException { PojoOptions po = new PojoOptions((Map) value(OPTIONS)); Class k = (Class) value(CLASS); if ( ! typeToAnnotationType.containsKey( k )) { throw new IllegalArgumentException( ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/e7211bef67998900c29cd33507ee459182f5fe34/PojosFindAnnotationsQueryDefinition.java/buggy/components/server/src/ome/services/query/PojosFindAnnotationsQueryDefinition.java |
view.clearTree(); return; | public void refreshTree() { switch (model.getState()) { case LOADING_DATA: case LOADING_LEAVES: case DISCARDED: throw new IllegalStateException( "This method cannot be invoked in the LOADING_DATA, "+ " LOADING_LEAVES or DISCARDED ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/44eb56c2a9d55ab644f5ffcf1a859c1d041e3e4d/BrowserComponent.java/clean/SRC/org/openmicroscopy/shoola/agents/treeviewer/browser/BrowserComponent.java | |
state.setResult(receiver.callMethod(iVisited.getName(), args, callType)); if (iVisited.getName().equals("blah")) ; | state.setResult(receiver.callMethod(iVisited.getName(), args, callType)); | public void execute(EvaluationState state, InstructionContext ctx) { CallNode iVisited = (CallNode)ctx; state.getThreadContext().beginCallArgs(); IRubyObject receiver = null; IRubyObject[] args = null; try { receiver = state.begin(iVisited.getReceiver... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/16914196e47e6cb8b99f2a309bb95bbc7a48f10d/EvaluateVisitor.java/clean/src/org/jruby/evaluator/EvaluateVisitor.java |
state.getThreadContext().getRubyClass().setClassVar(iVisited.getName(), state.getResult()); | ((RubyModule) state.getThreadContext().peekCRef().getValue()).setClassVar(iVisited.getName(), state.getResult()); | public void execute(EvaluationState state, InstructionContext ctx) { ClassVarAsgnNode iVisited = (ClassVarAsgnNode)ctx; state.getThreadContext().getRubyClass().setClassVar(iVisited.getName(), state.getResult()); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/16914196e47e6cb8b99f2a309bb95bbc7a48f10d/EvaluateVisitor.java/clean/src/org/jruby/evaluator/EvaluateVisitor.java |
FindRegExTitleAndAnnotationVisitor(HiViewer viewer, String regEx) | FindRegExTitleAndAnnotationVisitor(HiViewer viewer, Pattern pattern) | FindRegExTitleAndAnnotationVisitor(HiViewer viewer, String regEx) { super(viewer, regEx); colors = Colors.getInstance(); inAnno = false; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0c7517f5d0ece413452f58f3f0a071be2ccbee2e/FindRegExTitleAndAnnotationVisitor.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/cmd/FindRegExTitleAndAnnotationVisitor.java |
super(viewer, regEx); | super(viewer, pattern); | FindRegExTitleAndAnnotationVisitor(HiViewer viewer, String regEx) { super(viewer, regEx); colors = Colors.getInstance(); inAnno = false; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0c7517f5d0ece413452f58f3f0a071be2ccbee2e/FindRegExTitleAndAnnotationVisitor.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/cmd/FindRegExTitleAndAnnotationVisitor.java |
FindRegExVisitor(HiViewer viewer, String regEx) | FindRegExVisitor(HiViewer viewer, Pattern pattern) | FindRegExVisitor(HiViewer viewer, String regEx) { super(viewer); if (regEx == null) throw new IllegalArgumentException("No regular expression."); pattern = RegExFactory.createCaseInsensitivePattern(regEx); foundNodes = new HashSet(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0c7517f5d0ece413452f58f3f0a071be2ccbee2e/FindRegExVisitor.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/cmd/FindRegExVisitor.java |
if (regEx == null) throw new IllegalArgumentException("No regular expression."); pattern = RegExFactory.createCaseInsensitivePattern(regEx); | if (pattern == null) throw new IllegalArgumentException("No pattern."); this.pattern = pattern; | FindRegExVisitor(HiViewer viewer, String regEx) { super(viewer); if (regEx == null) throw new IllegalArgumentException("No regular expression."); pattern = RegExFactory.createCaseInsensitivePattern(regEx); foundNodes = new HashSet(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0c7517f5d0ece413452f58f3f0a071be2ccbee2e/FindRegExVisitor.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/cmd/FindRegExVisitor.java |
return Collections.EMPTY_LIST; | return EMPTY_LIST; | public List childNodes() { return Collections.EMPTY_LIST; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/b1293eda8454686e846e2a9837b348e2983bb423/BackRefNode.java/clean/src/org/jruby/ast/BackRefNode.java |
iconWidth = menuIconImage.getWidth(null); iconHeight = menuIconImage.getHeight(null); menuIconShape = new Rectangle2D.Double(8,36,iconWidth,iconHeight); | private void initOverlayShapes() { int width = getImage().getWidth(null); int height = getImage().getHeight(null); PaintShapeGenerator generator = PaintShapeGenerator.getInstance(); if(multipleModeOn) { Shape prevShape = generator.getPrevImageShape(); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0e4e3c4b5f21d2217fc02b1e6846dac6de60570f/SemanticZoomNode.java/clean/SRC/org/openmicroscopy/shoola/agents/browser/ui/SemanticZoomNode.java | |
g2.fill(menuIconShape); g2.drawImage(menuIconImage, (int)Math.round(menuIconShape.getX()), (int)Math.round(menuIconShape.getY()),null); | public void paint(PPaintContext context) { Graphics2D g2 = context.getGraphics(); Paint oldPaint = g2.getPaint(); Font oldFont = g2.getFont(); Color oldColor = g2.getColor(); g2.setPaint(Color.yellow); g2.fill(border); g2.setPaint(new Color(153,153,153,128)); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0e4e3c4b5f21d2217fc02b1e6846dac6de60570f/SemanticZoomNode.java/clean/SRC/org/openmicroscopy/shoola/agents/browser/ui/SemanticZoomNode.java | |
if(menuIconShape != null) { if(menuIconShape.contains(pos)) { backingModel.selectThumbnail(parentThumbnail); JPopupMenu popup = PopupMenuFactory.getThumbnailMenu(backingModel); Component component = (PCanvas)event.getComponent(); int x = (int)Math.round(getOffset().getX())+8; int y = (int)Math.round(getOffset().getY()... | public void respondMouseClick(PInputEvent event) { Point2D pos = event.getPositionRelativeTo(this); if(prevImageShape != null) { if(prevImageShape.contains(pos)) { parentThumbnail.showPreviousImage(); setImage(thumbnailImages[parentThumbnai... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0e4e3c4b5f21d2217fc02b1e6846dac6de60570f/SemanticZoomNode.java/clean/SRC/org/openmicroscopy/shoola/agents/browser/ui/SemanticZoomNode.java | |
public static PiccoloAction getAnnotateImageAction(final Thumbnail t, final Point point) | public static PiccoloAction getAnnotateImageAction(final Thumbnail t) | public static PiccoloAction getAnnotateImageAction(final Thumbnail t, final Point point) { PiccoloAction action = new PiccoloAction() { public void execute() { BrowserEnvironment env = BrowserEnvironment.getI... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0e4e3c4b5f21d2217fc02b1e6846dac6de60570f/PiccoloActionFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/events/PiccoloActionFactory.java |
agent.annotateImage(t,point); | agent.annotateImage(t); | public static PiccoloAction getAnnotateImageAction(final Thumbnail t, final Point point) { PiccoloAction action = new PiccoloAction() { public void execute() { BrowserEnvironment env = BrowserEnvironment.getI... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/0e4e3c4b5f21d2217fc02b1e6846dac6de60570f/PiccoloActionFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/events/PiccoloActionFactory.java |
public static JPopupMenu getThumbnailMenu(final Thumbnail t) { final JMenuItem annotateItem = new JMenuItem("Annotate"); final JPopupMenu menu = new JPopupMenu() { public void show(Component arg0, int arg1, int arg2) { super.show(arg0, arg1, arg2); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/28e98417641b00a2e12a791f10f204dc4562dec1/PopupMenuFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/ui/PopupMenuFactory.java | ||
System.err.println("display="+displayPoint); | public static JPopupMenu getThumbnailMenu(final Thumbnail t) { final JMenuItem annotateItem = new JMenuItem("Annotate"); final JPopupMenu menu = new JPopupMenu() { public void show(Component arg0, int arg1, int arg2) { super.show(arg0, arg1, arg2); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/28e98417641b00a2e12a791f10f204dc4562dec1/PopupMenuFactory.java/buggy/SRC/org/openmicroscopy/shoola/agents/browser/ui/PopupMenuFactory.java | |
if (runtime.getSafeLevel() >= 4 && !receiver.isTaint()) { throw runtime.newSecurityError("Insecure; can't define singleton method."); } if (receiver.isFrozen()) { throw runtime.newFrozenError("object"); } if (!receiver.singletonMethodsAllowed()) { throw runtime.newTypeError("can't define singleton method \"" + iVisited... | RubyClass rubyClass; if (receiver.isNil()) { rubyClass = runtime.getNilClass(); } else if (receiver == runtime.getTrue()) { rubyClass = runtime.getClass("TrueClass"); } else if (receiver == runtime.getFalse()) { rubyClass = runtime.getClass("FalseClass"); } else { if (runtime.getSafeLevel() >= 4 && !receiver.isTaint()... | private static IRubyObject evalInternal(ThreadContext context, Node node, IRubyObject self) { IRuby runtime = context.getRuntime(); bigloop: do { if (node == null) return runtime.getNil(); switch (node.nodeId) { case NodeTypes.ALIASNODE: { AliasNode ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/b520257f51e4960a6f954cc9e72cf4601cfd900e/EvaluationState.java/buggy/src/org/jruby/evaluator/EvaluationState.java |
public SessionHandler(DataSource dataSource, SessionFactory factory) { this.dataSource = dataSource; this.delegate = new HibernateInterceptor(); this.factory = factory; this.delegate.setSessionFactory(factory); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f7d8facc0df80871004c721c1920ba34361d4e05/SessionHandler.java/buggy/components/server/src/ome/tools/hibernate/SessionHandler.java | ||
catch (Throwable e) { e.printStackTrace(); throw e; } | private Object doStateful(MethodInvocation invocation) throws Throwable { Object result = null; try { newOrRestoredSession(invocation); result = invocation.proceed(); return result; } finally { if (isCloseSession(invocation)) ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f7d8facc0df80871004c721c1920ba34361d4e05/SessionHandler.java/buggy/components/server/src/ome/tools/hibernate/SessionHandler.java | |
if (isCloseSession(invocation)) { closeSession(); } else { disconnectSession(); } resetThreadSession(); | try { if (isCloseSession(invocation)) { closeSession(); } else { disconnectSession(); } } catch (Exception e) { debug("Error while closing/disconnecting session."); } finally { resetThreadSession(); | private Object doStateful(MethodInvocation invocation) throws Throwable { Object result = null; try { newOrRestoredSession(invocation); result = invocation.proceed(); return result; } finally { if (isCloseSession(invocation)) ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f7d8facc0df80871004c721c1920ba34361d4e05/SessionHandler.java/buggy/components/server/src/ome/tools/hibernate/SessionHandler.java |
if (sessions.containsKey(invocation.getThis())) { sessions.get(invocation.getThis()).calls--; | if (sessions.containsKey(invocation.getThis())) { sessions.get(invocation.getThis()).calls--; } | private Object doStateful(MethodInvocation invocation) throws Throwable { Object result = null; try { newOrRestoredSession(invocation); result = invocation.proceed(); return result; } finally { if (isCloseSession(invocation)) ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/f7d8facc0df80871004c721c1920ba34361d4e05/SessionHandler.java/buggy/components/server/src/ome/tools/hibernate/SessionHandler.java |
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