rem stringlengths 0 477k | add stringlengths 0 313k | context stringlengths 6 599k | meta stringlengths 141 403 |
|---|---|---|---|
public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session.createQuery( "select g.id from ExperimenterGroup g where g.details.owner.id = :id"); q.setParameter("id", e.getId()); return q.list(); } | public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session .createQuery("select g.id from ExperimenterGroup g where g.details.owner.id = :id"); q.setParameter("id", e.getId()); return q.list(); } | public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session.createQuery( "select g.id from ExperimenterGroup g where g.details.owner.id = :id"); q.setParameter("id", e.getId()); return q.list(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public List<Long> getMemberOfGroupIds( final Experimenter e ) { Assert.notNull(e); Assert.notNull(e.getId()); List<Long> groupIds = iQuery.execute(new HibernateCallback(){ public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session.createQuery( "select m.paren... | public List<Long> getMemberOfGroupIds(final Experimenter e) { Assert.notNull(e); Assert.notNull(e.getId()); List<Long> groupIds = iQuery.execute(new HibernateCallback() { public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session .createQuery("select m.parent... | public List<Long> getMemberOfGroupIds( final Experimenter e ) { Assert.notNull(e); Assert.notNull(e.getId()); List<Long> groupIds = iQuery.execute(new HibernateCallback(){ public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hiberna... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session.createQuery( "select m.parent.id from GroupExperimenterMap m " + "where m.child.id = :id"); q.setParameter("id", e.getId()); return q.list(); } | public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session .createQuery("select m.parent.id from GroupExperimenterMap m " + "where m.child.id = :id"); q.setParameter("id", e.getId()); return q.list(); } | public Object doInHibernate(Session session) throws HibernateException, SQLException { org.hibernate.Query q = session.createQuery( "select m.parent.id from GroupExperimenterMap m " + "where m.child.id = :id"); q.setParameter("id", e.getId()); return q.list... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public Roles getSecurityRoles() { return getSecuritySystem().getSecurityRoles(); } | public Roles getSecurityRoles() { return getSecuritySystem().getSecurityRoles(); } | public Roles getSecurityRoles() { return getSecuritySystem().getSecurityRoles(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
protected Class<? extends ServiceInterface> getServiceInterface() { return IAdmin.class; } | protected Class<? extends ServiceInterface> getServiceInterface() { return IAdmin.class; } | protected Class<? extends ServiceInterface> getServiceInterface() { return IAdmin.class; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public ExperimenterGroup groupProxy(Long id) { if ( id == null ) throw new ApiUsageException("Id argument cannot be null."); | public ExperimenterGroup groupProxy(Long id) { if (id == null) throw new ApiUsageException("Id argument cannot be null."); | public ExperimenterGroup groupProxy(Long id) { if ( id == null ) throw new ApiUsageException("Id argument cannot be null."); ExperimenterGroup g = iQuery.get(ExperimenterGroup.class,id); return g; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
ExperimenterGroup g = iQuery.get(ExperimenterGroup.class,id); return g; } | ExperimenterGroup g = iQuery.get(ExperimenterGroup.class, id); return g; } | public ExperimenterGroup groupProxy(Long id) { if ( id == null ) throw new ApiUsageException("Id argument cannot be null."); ExperimenterGroup g = iQuery.get(ExperimenterGroup.class,id); return g; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
protected void internalChangeUserPasswordById(Long id, String password) { int results = jdbc.update( "update password set hash = ? " + "where experimenter_id = ? ", preparePassword(password),id ); if ( results < 1 ) { results = jdbc.update("insert into password values (?,?) ", id,preparePassword(password)); } synchroni... | protected void internalChangeUserPasswordById(Long id, String password) { int results = jdbc.update("update password set hash = ? " + "where experimenter_id = ? ", preparePassword(password), id); if (results < 1) { results = jdbc.update("insert into password values (?,?) ", id, preparePassword(password)); } synchronize... | protected void internalChangeUserPasswordById(Long id, String password) { int results = jdbc.update( "update password set hash = ? " + "where experimenter_id = ? ", preparePassword(password),id ); if ( results < 1 ) { results = jdbc.update("insert into passw... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public Experimenter lookupExperimenter(final String omeName) { Experimenter e = iQuery.execute( new UserQ( new Parameters( ) .addString("name",omeName))); if (e == null) { throw new ApiUsageException("No such experimenter: " + omeName); } | public Experimenter lookupExperimenter(final String omeName) { Experimenter e = iQuery.execute(new UserQ(new Parameters().addString( "name", omeName))); | public Experimenter lookupExperimenter(final String omeName) { Experimenter e = iQuery.execute( new UserQ( new Parameters( ) .addString("name",omeName))); if (e == null) { throw new ApiUsageException("No such experimenter: " + omeName); } return e; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
return e; } | if (e == null) { throw new ApiUsageException("No such experimenter: " + omeName); } return e; } | public Experimenter lookupExperimenter(final String omeName) { Experimenter e = iQuery.execute( new UserQ( new Parameters( ) .addString("name",omeName))); if (e == null) { throw new ApiUsageException("No such experimenter: " + omeName); } return e; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public ExperimenterGroup lookupGroup(final String groupName) { ExperimenterGroup g = iQuery.execute( new GroupQ( new Parameters( ).addString("name",groupName))); if (g == null) { throw new ApiUsageException("No such group: " + groupName); } | public ExperimenterGroup lookupGroup(final String groupName) { ExperimenterGroup g = iQuery.execute(new GroupQ(new Parameters() .addString("name", groupName))); | public ExperimenterGroup lookupGroup(final String groupName) { ExperimenterGroup g = iQuery.execute( new GroupQ( new Parameters( ).addString("name",groupName))); if (g == null) { throw new ApiUsageException("No such group: " + groupName); } return g; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
return g; } | if (g == null) { throw new ApiUsageException("No such group: " + groupName); } return g; } | public ExperimenterGroup lookupGroup(final String groupName) { ExperimenterGroup g = iQuery.execute( new GroupQ( new Parameters( ).addString("name",groupName))); if (g == null) { throw new ApiUsageException("No such group: " + groupName); } return g; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
protected String passwordDigest( String clearText ) { if ( clearText == null ) { throw new ApiUsageException("Value for digesting may not be null"); } String hashedText = Util .createPasswordHash("MD5", "base64", "ISO-8859-1", null, clearText, null); if ( hashedText == null ) { | protected String passwordDigest(String clearText) { if (clearText == null) { throw new ApiUsageException("Value for digesting may not be null"); } String hashedText = Util.createPasswordHash("MD5", "base64", "ISO-8859-1", null, clearText, null); if (hashedText == null) { | protected String passwordDigest( String clearText ) { if ( clearText == null ) { throw new ApiUsageException("Value for digesting may not be null"); } // These constants are also defined in app/resources/jboss-login.xml // and this method is called from {@link JBossLoginModule} ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
} | } | protected String passwordDigest( String clearText ) { if ( clearText == null ) { throw new ApiUsageException("Value for digesting may not be null"); } // These constants are also defined in app/resources/jboss-login.xml // and this method is called from {@link JBossLoginModule} ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
return newPassword == null ? null | return newPassword == null ? null | protected String preparePassword(String newPassword) { // This allows setting passwords to "null" - locked account. return newPassword == null ? null // This allows empty passwords to be considered "open-access" : newPassword.trim().length() == 0 ? newPassword // Regular MD5 digest. : passwordDig... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
protected String preparePassword(String newPassword) { // This allows setting passwords to "null" - locked account. return newPassword == null ? null // This allows empty passwords to be considered "open-access" : newPassword.trim().length() == 0 ? newPassword // Regular MD5 digest. : passwordDig... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java | ||
public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { if (g.getId()!=null) toRemove.add(g.getId()); | public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { if (g.getId() != null) toRemove.add(g.getId()); | public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
for (GroupExperimenterMap map : (List<GroupExperimenterMap>) foundUser.collectGroupExperimenterMap(null)) { if (toRemove.contains(map.parent().getId())) { | for (GroupExperimenterMap map : (List<GroupExperimenterMap>) foundUser .collectGroupExperimenterMap(null)) { if (toRemove.contains(map.parent().getId())) { | public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
getSecuritySystem().doAction(map,new SecureAction(){ public <T extends IObject> T updateObject(T obj) { iUpdate.deleteObject( obj ); return null; } }); | getSecuritySystem().doAction(map, new SecureAction() { public <T extends IObject> T updateObject(T obj) { iUpdate.deleteObject(obj); return null; } }); | public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
} iUpdate.flush(); } | } iUpdate.flush(); } | public void removeGroups(Experimenter user, ExperimenterGroup... groups) { if (user == null) return; if (groups == null) return; Experimenter foundUser = getExperimenter(user.getId()); List<Long> toRemove = new ArrayList<Long>(); for (ExperimenterGroup g : groups) { ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
iUpdate.deleteObject( obj ); return null; } | iUpdate.deleteObject(obj); return null; } | public <T extends IObject> T updateObject(T obj) { iUpdate.deleteObject( obj ); return null; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public void setDefaultGroup(Experimenter user, ExperimenterGroup group) { if (user == null) return; if (group == null) return; if (group.getId() == null) { throw new ApiUsageException("Group argument to setDefaultGroup " + "must be managed (i.e. have an id)"); } boolean newDefaultSet = false; Experimenter foundUser =... | public void setDefaultGroup(Experimenter user, ExperimenterGroup group) { if (user == null) return; if (group == null) return; if (group.getId() == null) { throw new ApiUsageException("Group argument to setDefaultGroup " + "must be managed (i.e. have an id)"); | public void setDefaultGroup(Experimenter user, ExperimenterGroup group) { if (user == null) return; if (group == null) return; if (group.getId() == null) { throw new ApiUsageException("Group argument to setDefaultGroup " + "must be managed (i.e. have an id)"... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
if ( ! newDefaultSet) { throw new ApiUsageException("Group "+group.getId()+" was not " + "found for user "+user.getId()); } iUpdate.flush(); } | boolean newDefaultSet = false; Experimenter foundUser = getExperimenter(user.getId()); for (GroupExperimenterMap map : (List<GroupExperimenterMap>) foundUser .collectGroupExperimenterMap(null)) { if (map.parent().getId().equals(group.getId())) { map.setDefaultGroupLink(Boolean.TRUE); newDefaultSet = true; } else { map... | public void setDefaultGroup(Experimenter user, ExperimenterGroup group) { if (user == null) return; if (group == null) return; if (group.getId() == null) { throw new ApiUsageException("Group argument to setDefaultGroup " + "must be managed (i.e. have an id)"... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public final void setExtendedMetadata( ExtendedMetadata extMetadata ) { throwIfAlreadySet(this.em, extMetadata); em = extMetadata; } | public final void setExtendedMetadata(ExtendedMetadata extMetadata) { throwIfAlreadySet(this.em, extMetadata); em = extMetadata; } | public final void setExtendedMetadata( ExtendedMetadata extMetadata ) { throwIfAlreadySet(this.em, extMetadata); em = extMetadata; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public final void setJdbcTemplate( SimpleJdbcTemplate jdbcTemplate ) { throwIfAlreadySet(this.jdbc, jdbcTemplate); jdbc = jdbcTemplate; } | public final void setJdbcTemplate(SimpleJdbcTemplate jdbcTemplate) { throwIfAlreadySet(this.jdbc, jdbcTemplate); jdbc = jdbcTemplate; } | public final void setJdbcTemplate( SimpleJdbcTemplate jdbcTemplate ) { throwIfAlreadySet(this.jdbc, jdbcTemplate); jdbc = jdbcTemplate; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public final void setSessionFactory( SessionFactory sessionFactory ) { throwIfAlreadySet(this.sf, sessionFactory); sf = sessionFactory; } | public final void setSessionFactory(SessionFactory sessionFactory) { throwIfAlreadySet(this.sf, sessionFactory); sf = sessionFactory; } | public final void setSessionFactory( SessionFactory sessionFactory ) { throwIfAlreadySet(this.sf, sessionFactory); sf = sessionFactory; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public void synchronizeLoginCache() { String string = "omero:service=LoginConfig"; MBeanServer mbeanServer = JmxUtils.locateMBeanServer(); getLogger().debug("Acquired MBeanServer."); ObjectName name; try { name = new ObjectName(string); mbeanServer.invoke( name, "flushAuthenticationCaches", new Object[]{}, new String... | public void synchronizeLoginCache() { String string = "omero:service=LoginConfig"; MBeanServer mbeanServer = JmxUtils.locateMBeanServer(); getLogger().debug("Acquired MBeanServer."); ObjectName name; try { name = new ObjectName(string); mbeanServer.invoke(name, "flushAuthenticationCaches", new Object[] {}, new String... | public void synchronizeLoginCache() { String string = "omero:service=LoginConfig"; // using Spring utilities to get MBeanServer MBeanServer mbeanServer = JmxUtils.locateMBeanServer(); getLogger().debug("Acquired MBeanServer."); ObjectName name; try { // defined ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public boolean[] unlock(final IObject...iObjects ) { if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; Session s = SessionFactoryUtils.getNewSession( sf, EmptyInterceptor.INSTANCE ); Transaction tx = s.beginTransaction(); try { boolean[] isUnlocked = new boolean[iObjects.length]; for (int i =... | public boolean[] unlock(final IObject... iObjects) { if (iObjects == null | iObjects.length < 1) return new boolean[] {}; Session s = SessionFactoryUtils.getNewSession(sf, EmptyInterceptor.INSTANCE); Transaction tx = s.beginTransaction(); try { boolean[] isUnlocked = new boolean[iObjects.length]; for (int i = 0;... | public boolean[] unlock(final IObject...iObjects ) { // do nothing if possible if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; // create a new session. It's important that we pass in the empty // interceptor here, otherwise even root wouldn't be allowed to unlock ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
if ( orig == null || orig.getId() == null ) { isUnlocked[i] = true; continue; } final IObject object = (IObject) s.load( orig.getClass(), orig.getId() ); if ( ! object.getDetails().getPermissions().isSet(Flag.LOCKED) ) { isUnlocked[i] = true; continue; } final Class<? extends IObject> klass = Utils.trueClass( ... | if (orig == null || orig.getId() == null) { isUnlocked[i] = true; continue; | public boolean[] unlock(final IObject...iObjects ) { // do nothing if possible if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; // create a new session. It's important that we pass in the empty // interceptor here, otherwise even root wouldn't be allowed to unlock ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
if ( getLogger().isDebugEnabled() ) { getLogger().debug( counts ); } if ( total == 0 ) { object.getDetails().getPermissions().unSet( Flag.LOCKED ); isUnlocked[i] = true; } else { isUnlocked[i] = false; } | final IObject object = (IObject) s.load(orig.getClass(), orig .getId()); if (!object.getDetails().getPermissions().isSet(Flag.LOCKED)) { isUnlocked[i] = true; continue; } final Class<? extends IObject> klass = Utils.trueClass(object .getClass()); final long id = object.getId().longValue(); String[][] checks ... | public boolean[] unlock(final IObject...iObjects ) { // do nothing if possible if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; // create a new session. It's important that we pass in the empty // interceptor here, otherwise even root wouldn't be allowed to unlock ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
return isUnlocked; } finally { | return isUnlocked; } finally { | public boolean[] unlock(final IObject...iObjects ) { // do nothing if possible if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; // create a new session. It's important that we pass in the empty // interceptor here, otherwise even root wouldn't be allowed to unlock ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
} } | } } | public boolean[] unlock(final IObject...iObjects ) { // do nothing if possible if ( iObjects == null | iObjects.length < 1 ) return new boolean[]{}; // create a new session. It's important that we pass in the empty // interceptor here, otherwise even root wouldn't be allowed to unlock ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
public Experimenter userProxy(final Long id) { if ( id == null ) throw new ApiUsageException("Id argument cannot be null."); Experimenter e = iQuery.get(Experimenter.class, id); return e; } | public Experimenter userProxy(final Long id) { if (id == null) throw new ApiUsageException("Id argument cannot be null."); Experimenter e = iQuery.get(Experimenter.class, id); return e; } | public Experimenter userProxy(final Long id) { if ( id == null ) throw new ApiUsageException("Id argument cannot be null."); Experimenter e = iQuery.get(Experimenter.class, id); return e; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/7e7c45d25ea1bbef3485ae116b3eb108d9f6f5ef/AdminImpl.java/clean/components/server/src/ome/logic/AdminImpl.java |
final VCardPanel vcardPanel = new VCardPanel(getParticipantJID()); getToolBar().add(vcardPanel, new GridBagConstraints(0, 1, 1, 1, 1.0, 0.0, GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL, new Insets(5, 5, 5, 5), 0, 0)); | SwingWorker worker = new SwingWorker() { public Object construct() { return SparkManager.getVCardManager().getVCard(participantJID); } public void finished() { final VCard vcard = (VCard)get(); if (vcard == null) { return; } final VCardPanel vcardPanel = new VCardPanel(vcard, participantJID); getToolBar().add(vcar... | public ChatRoomImpl(final String participantJID, String participantNickname, String title) { this.participantJID = participantJID; this.participantNickname = participantNickname; AndFilter presenceFilter = new AndFilter(new PacketTypeFilter(Presence.class), new FromContainsFilter(this.participa... | 52006 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52006/da1687b63c06d7dd9fe93840d507e6d48e13de11/ChatRoomImpl.java/clean/src/java/org/jivesoftware/spark/ui/rooms/ChatRoomImpl.java |
return "tag:yaml.org,2002:null".equals(node.getTag()) || ("tag:yaml.org,2002:seq".equals(node.getTag()) && ((java.util.List)node.getValue()).isEmpty()) || ("tag:yaml.org,2002:map".equals(node.getTag()) && ((java.util.Map)node.getValue()).isEmpty()); | return true; | protected boolean ignoreAnchor(Node node) { return "tag:yaml.org,2002:null".equals(node.getTag()) || ("tag:yaml.org,2002:seq".equals(node.getTag()) && ((java.util.List)node.getValue()).isEmpty()) || ("tag:yaml.org,2002:map".equals(node.getTag()) && ((java.util.Map)node.getValue()).isEm... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/20188965a791bc0b14113c10e67bdbfd4e6827c5/JRubySerializer.java/buggy/src/org/jruby/yaml/JRubySerializer.java |
DatasetAnnotation da = annotator.createDatasetAnnotation(annotation); | DatasetAnnotation da = annotator.createDatasetAnnotation(annotation,datasetID); | public void newAnnotation(String annotation) { DatasetAnnotation da = annotator.createDatasetAnnotation(annotation); annotationList.add(da); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/b8aa9d8c9035f1fe142d99b7f63b4b808d4a9fed/DatasetAnnotationCtrl.java/buggy/SRC/org/openmicroscopy/shoola/agents/annotator/DatasetAnnotationCtrl.java |
for (int i = 0; i < listeners.length; i++) view.tree.removeTreeExpansionListener(listeners[i]); | private void onClick(MouseEvent e) { int selRow = view.tree.getRowForLocation(e.getX(), e.getY()); if (selRow != -1) { view.tree.setSelectionRow(selRow); DataObject target = view.getCurrentOMEObject(); // remove tree expansion listener //otherwise a tree expansion event is fired when we //double-cl... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/6ec05530173229b43c3f21f0021b71fd776dd63c/ExplorerPaneManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/datamng/ExplorerPaneManager.java | |
for (int i = 0; i < listeners.length; i++) view.tree.addTreeExpansionListener(listeners[i]); | private void onClick(MouseEvent e) { int selRow = view.tree.getRowForLocation(e.getX(), e.getY()); if (selRow != -1) { view.tree.setSelectionRow(selRow); DataObject target = view.getCurrentOMEObject(); // remove tree expansion listener //otherwise a tree expansion event is fired when we //double-cl... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/6ec05530173229b43c3f21f0021b71fd776dd63c/ExplorerPaneManager.java/buggy/SRC/org/openmicroscopy/shoola/agents/datamng/ExplorerPaneManager.java | |
flatCollections); | flatCollections, superClasses, interfaces); | private ElementMapping loadElement(JavaClass javaClass) { DocletTag xbeanTag = javaClass.getTagByName(XBEAN_ANNOTATION); if (xbeanTag == null) { return null; } String element = getElementName(javaClass, xbeanTag); String description = getProperty(xbeanTag, "description"... | 52533 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52533/82f8c1592f773a8e10d7a95ab3c2405dc29d8a3e/QdoxMappingLoader.java/clean/xbean-spring-common/src/main/java/org/apache/xbean/spring/generator/QdoxMappingLoader.java |
Color gradientStart = new Color(0.5f, 0.5f, 0.5f, 0.8f); Color gradientEnd = new Color(0.3f, 0.3f, 0.3f, 0.9f); | Color gradientStart = new Color(0.5f, 0.5f, 0.5f, 1.0f); Color gradientEnd = new Color(0.3f, 0.3f, 0.3f, 1.0f); | private void drawGreyMask(Graphics2D g) { GradientPaint gp; // Set a gradient mask of V=.5 to V = 0.3; this has an alpha // value to show the colours of the button underlying the mask. Color gradientStart = new Color(0.5f, 0.5f, 0.5f, 0.8f); Color gradientEnd = new Colo... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/3878a115ce22ca0c57db2b2488dd61685384ba45/ColouredButtonUI.java/buggy/SRC/org/openmicroscopy/shoola/util/ui/ColouredButtonUI.java |
topGradientValue, 0.6f); | topGradientValue, 1.0f); | private void setGradientColours() { HSV col = new HSV(colour); // top gradient value from HSV model. float topGradientValue = col.getValue(); // bottom gradient value from HSV model. float bottomGradientValue = col.getValue(); // top and bottom gradien... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/3878a115ce22ca0c57db2b2488dd61685384ba45/ColouredButtonUI.java/buggy/SRC/org/openmicroscopy/shoola/util/ui/ColouredButtonUI.java |
bottomGradientSaturation, bottomGradientValue, 0.6f); | bottomGradientSaturation, bottomGradientValue, 1.0f); | private void setGradientColours() { HSV col = new HSV(colour); // top gradient value from HSV model. float topGradientValue = col.getValue(); // bottom gradient value from HSV model. float bottomGradientValue = col.getValue(); // top and bottom gradien... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/3878a115ce22ca0c57db2b2488dd61685384ba45/ColouredButtonUI.java/buggy/SRC/org/openmicroscopy/shoola/util/ui/ColouredButtonUI.java |
byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash instanceof RubyString) { trigger = ((RubyString) dollar_backslash).toByteArray(); } else { trigger = RubyString.stringToBytes("\n"); } loop: | public int write(String string) throws IOException, BadDescriptorException { checkWritable(); ByteBuffer buffer = ByteBuffer.wrap(RubyString.stringToBytes(string)); byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash in... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/4a6b21deaf3a8472be6c0e7f4663f1a582ba5b85/IOHandlerNio.java/buggy/src/org/jruby/util/IOHandlerNio.java | |
int idx; | public int write(String string) throws IOException, BadDescriptorException { checkWritable(); ByteBuffer buffer = ByteBuffer.wrap(RubyString.stringToBytes(string)); byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash in... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/4a6b21deaf3a8472be6c0e7f4663f1a582ba5b85/IOHandlerNio.java/buggy/src/org/jruby/util/IOHandlerNio.java | |
if (!outBuffer.hasRemaining() || isSync()) { | if ((buffer.hasRemaining() && !outBuffer.hasRemaining()) || isSync()) { | public int write(String string) throws IOException, BadDescriptorException { checkWritable(); ByteBuffer buffer = ByteBuffer.wrap(RubyString.stringToBytes(string)); byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash in... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/4a6b21deaf3a8472be6c0e7f4663f1a582ba5b85/IOHandlerNio.java/buggy/src/org/jruby/util/IOHandlerNio.java |
} else if ((idx = buffer_rindex(outBuffer, trigger)) >= 0) { int oldLimit = outBuffer.limit(); outBuffer.limit(idx + trigger.length); flushOutBuffer(); outBuffer.position(idx + trigger.length); outBuffer.limit(oldLimit); int i; for (i = 0; outBuffer.hasRemaining(); i++) { outBuffer.put(i, outBuffer.get()); } outBuffer.... | public int write(String string) throws IOException, BadDescriptorException { checkWritable(); ByteBuffer buffer = ByteBuffer.wrap(RubyString.stringToBytes(string)); byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash in... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/4a6b21deaf3a8472be6c0e7f4663f1a582ba5b85/IOHandlerNio.java/buggy/src/org/jruby/util/IOHandlerNio.java | |
} if(!isSync()) { flushOutBuffer(); | public int write(String string) throws IOException, BadDescriptorException { checkWritable(); ByteBuffer buffer = ByteBuffer.wrap(RubyString.stringToBytes(string)); byte[] trigger; IRubyObject dollar_backslash = getRuntime().getGlobalVariables().get("$\\"); if (dollar_backslash in... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/4a6b21deaf3a8472be6c0e7f4663f1a582ba5b85/IOHandlerNio.java/buggy/src/org/jruby/util/IOHandlerNio.java | |
ps.setString(1, getTableName()); ps.setString(2, getIDColumnName()); ps.setInt(3, id); | void delete() throws Exception { DBManager dbm = DBManager.getInstance(); PreparedStatement ps = dbm.getPreparedStatement(DELETE_STM); ps.setString(1, getTableName()); ps.setString(2, getIDColumnName()); ps.setInt(3, id); ps.execute(); ps.close(); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/573df7087912a67672c1e083613af66bdbf3486e/DBRow.java/clean/TEST/omeds/DBRow.java | |
assertStringTemplateEquals (tmpl, "pass"); | assertStringTemplateEquals (tmpl, "pass\n"); | public void testBeginEnd () throws Exception { String tmpl = "#if (true) #begin pass #end #else #begin fail #end"; assertStringTemplateEquals (tmpl, "pass"); tmpl = "#if (true)\n #begin pass\n #end\n #else\n #begin fail\n #end"; assertStringTemplateEquals (tmpl, "pass"); } | 52513 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52513/f5ebf1fa86f338484c8f14f11ac1fbcc329367a3/TestBlocks.java/clean/webmacro/test/unit/org/webmacro/template/TestBlocks.java |
return recv.getRuntime().getCurrentContext().yield(tag); | context.pushCatch(tag.asSymbol()); return context.yield(tag); | public static IRubyObject rbCatch(IRubyObject recv, IRubyObject tag) { try { return recv.getRuntime().getCurrentContext().yield(tag); } catch (JumpException je) { if (je.getJumpType() == JumpException.JumpType.ThrowJump) { if (je.getPrimaryData().equals(tag.asSymbol())) ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/43527512ed5edac73606a65971bfe9f8a7c23c7b/RubyKernel.java/buggy/src/org/jruby/RubyKernel.java |
} finally { context.popCatch(); | public static IRubyObject rbCatch(IRubyObject recv, IRubyObject tag) { try { return recv.getRuntime().getCurrentContext().yield(tag); } catch (JumpException je) { if (je.getJumpType() == JumpException.JumpType.ThrowJump) { if (je.getPrimaryData().equals(tag.asSymbol())) ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/43527512ed5edac73606a65971bfe9f8a7c23c7b/RubyKernel.java/buggy/src/org/jruby/RubyKernel.java | |
JumpException je = new JumpException(JumpException.JumpType.ThrowJump); | public static IRubyObject rbThrow(IRubyObject recv, IRubyObject[] args) { IRuby runtime = recv.getRuntime(); JumpException je = new JumpException(JumpException.JumpType.ThrowJump); String tag = args[0].asSymbol(); IRubyObject value = args.length > 1 ? args[1] : recv.getRuntime().getNil()... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/43527512ed5edac73606a65971bfe9f8a7c23c7b/RubyKernel.java/buggy/src/org/jruby/RubyKernel.java | |
IRubyObject value = args.length > 1 ? args[1] : recv.getRuntime().getNil(); RubyException nameException = new RubyException(runtime, runtime.getClass("NameError"), "uncaught throw '" + tag + '\''); je.setPrimaryData(tag); je.setSecondaryData(value); je.setTertiaryData(nameException); throw je; | String[] catches = runtime.getCurrentContext().getActiveCatches(); String message = "uncaught throw '" + tag + '\''; for (int i = catches.length - 1 ; i >= 0 ; i--) { if (tag.equals(catches[i])) { JumpException je = new JumpException(JumpException.JumpType.ThrowJump); je.setPrimaryData(tag); je.setSecondaryData(ar... | public static IRubyObject rbThrow(IRubyObject recv, IRubyObject[] args) { IRuby runtime = recv.getRuntime(); JumpException je = new JumpException(JumpException.JumpType.ThrowJump); String tag = args[0].asSymbol(); IRubyObject value = args.length > 1 ? args[1] : recv.getRuntime().getNil()... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/43527512ed5edac73606a65971bfe9f8a7c23c7b/RubyKernel.java/buggy/src/org/jruby/RubyKernel.java |
public Dataset(Integer datasetId, boolean locked, String name, String description, org.openmicroscopy.omero.model.Group group, org.openmicroscopy.omero.model.Experimenter experimenter, Set moduleExecutions, Set datasetAnnotations, Set images, Set projects) { this.datasetId = datasetId; this.locked = locked; this.name =... | public Dataset() { | public Dataset(Integer datasetId, boolean locked, String name, String description, org.openmicroscopy.omero.model.Group group, org.openmicroscopy.omero.model.Experimenter experimenter, Set moduleExecutions, Set datasetAnnotations, Set images, Set projects) { this.datasetId = datasetId; this.locked = l... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
public org.openmicroscopy.omero.model.Experimenter getExperimenter() { | public Experimenter getExperimenter() { | public org.openmicroscopy.omero.model.Experimenter getExperimenter() { return this.experimenter; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
public org.openmicroscopy.omero.model.Group getGroup() { | public Group getGroup() { | public org.openmicroscopy.omero.model.Group getGroup() { return this.group; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
public void setExperimenter(org.openmicroscopy.omero.model.Experimenter experimenter) { | public void setExperimenter(Experimenter experimenter) { | public void setExperimenter(org.openmicroscopy.omero.model.Experimenter experimenter) { this.experimenter = experimenter; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
public void setGroup(org.openmicroscopy.omero.model.Group group) { | public void setGroup(Group group) { | public void setGroup(org.openmicroscopy.omero.model.Group group) { this.group = group; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
public void setLocked(boolean locked) { | public void setLocked(Boolean locked) { | public void setLocked(boolean locked) { this.locked = locked; } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/Dataset.java/buggy/components/common/src/org/openmicroscopy/omero/model/Dataset.java |
throw new RubyArgumentException(ruby, "wrong # of arguments(" + args.size() + " for " + i + ")"); | int size = 0; if(args != null) size = args.size(); throw new RubyArgumentException(ruby, "wrong # of arguments(" + size + " for " + i + ")"); | public RubyObject call(Ruby ruby, RubyObject recv, RubyId id, RubyPointer args, boolean noSuper) { CRefNode savedCref = null; // +++ = null; // RubyPointer argsList = new RubyPointer(args); RubyPointer localVarsList = null; ruby.getRubyScope().push(); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/d378b4018285512fd061f4972e55ab6ff3577de0/ScopeNode.java/buggy/org/jruby/nodes/ScopeNode.java |
{ model.addChangeListener(this); view.setDefaultCloseOperation(WindowConstants.DO_NOTHING_ON_CLOSE); } | { model.addChangeListener(this); view.setDefaultCloseOperation(WindowConstants.DO_NOTHING_ON_CLOSE); } | private void attachListeners() { model.addChangeListener(this); view.setDefaultCloseOperation(WindowConstants.DO_NOTHING_ON_CLOSE); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/464efde90db6bc5095c0a7e5952f51ad0f37ca86/AnnotatorControl.java/clean/SRC/org/openmicroscopy/shoola/agents/util/annotator/view/AnnotatorControl.java |
{ actionsMap.put(CANCEL, new CloseAction(model)); actionsMap.put(FINISH, new FinishAction(model)); } | { actionsMap.put(CANCEL, new CloseAction(model)); actionsMap.put(FINISH, new FinishAction(model)); } | private void createActions() { actionsMap.put(CANCEL, new CloseAction(model)); actionsMap.put(FINISH, new FinishAction(model)); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/464efde90db6bc5095c0a7e5952f51ad0f37ca86/AnnotatorControl.java/clean/SRC/org/openmicroscopy/shoola/agents/util/annotator/view/AnnotatorControl.java |
FileOutputStream stream = new FileOutputStream(path); | FileInputStream stream = new FileInputStream(path); | private FileChannel getFileChannel(Boolean readOnly) throws FileNotFoundException { if (readOnly == true) { if (roChannel == null) { FileOutputStream stream = new FileOutputStream(path); roChannel = stream.getChannel(); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java |
FileInputStream stream = new FileInputStream(path); | FileOutputStream stream = new FileOutputStream(path); | private FileChannel getFileChannel(Boolean readOnly) throws FileNotFoundException { if (readOnly == true) { if (roChannel == null) { FileOutputStream stream = new FileOutputStream(path); roChannel = stream.getChannel(); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java |
return getRegion(size, offset); | byte[] nullPlane = PixelsService.nullPlane; for (int i = 0; i < PixelsService.NULL_PLANE_SIZE; i++) if (region.get(i) != nullPlane[i]) return region; return null; | public MappedByteBuffer getPlane(Integer z, Integer c, Integer t) throws IOException, DimensionsOutOfBoundsException { Long offset = getPlaneOffset(z, c, t); Integer size = getPlaneSize(); return getRegion(size, offset); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java |
return fileChannel.map(MapMode.READ_ONLY, size, offset); | return fileChannel.map(MapMode.READ_ONLY, offset, size); | public MappedByteBuffer getRegion(Integer size, Long offset) throws IOException { FileChannel fileChannel = getFileChannel(true); /* fileChannel should not be "null" as it will throw an exception if * there happens to be an error. */ return fileChannel.... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java |
MappedByteBuffer region = getRegion(size, offset); byte[] nullPlane = PixelsService.nullPlane; | public MappedByteBuffer getStack(Integer c, Integer t) throws IOException, DimensionsOutOfBoundsException { Long offset = getStackOffset(c, t); Integer size = getStackSize(); MappedByteBuffer region = getRegion(size, offset); byte[] nullPlane = PixelsService.nullPlane; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java | |
for (int i = 0; i < PixelsService.NULL_PLANE_SIZE; i++) if (region.get(i) != nullPlane[i]) return region; return null; | return getRegion(size, offset); | public MappedByteBuffer getStack(Integer c, Integer t) throws IOException, DimensionsOutOfBoundsException { Long offset = getStackOffset(c, t); Integer size = getStackSize(); MappedByteBuffer region = getRegion(size, offset); byte[] nullPlane = PixelsService.nullPlane; ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/68fcf3cc1b9292144736bb3f929fd5962e8aa2b0/PixelBuffer.java/buggy/components/omeio-nio/src/ome/io/nio/PixelBuffer.java |
boolean NIL_P(VALUE value) { return value == Qnil; } | boolean NIL_P(VALUE value) { return value == ruby.getNil(); } | boolean NIL_P(VALUE value) { return value == Qnil; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
boolean RTEST(VALUE value) { return value != Qnil; } | boolean RTEST(VALUE value) { return value != ruby.getNil(); } | boolean RTEST(VALUE value) { return value != Qnil; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
rb_dvar_push(id, Qnil); | rb_dvar_push(id, /*Qnil*/ ruby.getNil()); | private NODE assignable(ID id, NODE val) { value_expr(val); if (id.intValue() == kSELF) { yyerror("Can't change the value of self"); } else if (id.intValue() == kNIL) { yyerror("Can't assign to nil"); } else if (id.intValue() == kTRUE) { yye... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
private void dyna_pop(RVarmap vars) { | private void dyna_pop(RubyVarmap vars) { | private void dyna_pop(RVarmap vars) { lvtbl.dlev--; ruby_dyna_vars = vars; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
ruby_dyna_vars = vars; | ruby.getInterpreter().setDynamicVars(vars); | private void dyna_pop(RVarmap vars) { lvtbl.dlev--; ruby_dyna_vars = vars; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
private RVarmap dyna_push() { RVarmap vars = ruby_dyna_vars; | private RubyVarmap dyna_push() { RubyVarmap vars = ruby.getInterpreter().getDynamicVars(); | private RVarmap dyna_push() { RVarmap vars = ruby_dyna_vars; rb_dvar_push(null, null); lvtbl.dlev++; return vars; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
return Qnil; | return ruby.getNil(); | private VALUE lex_gets_str(VALUE _s) { String s = ((RubyString)_s).getString(); if (lex_gets_ptr != 0) { if (s.length() == lex_gets_ptr) return Qnil; s = s.substring(lex_gets_ptr); } int end = 0; while (end < s.length()) { if (s.charAt(end++) == '\n') break; } lex_gets_ptr += end; return rb_str_new(s, ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
private RVarmap new_dvar(ID id, VALUE value, RVarmap prev) { RVarmap map = new RVarmap(); map.id = id; map.val = value; map.next = prev; return map; | private RubyVarmap new_dvar(ID id, VALUE value, RubyVarmap prev) { return new RubyVarmap((RubyId)id, (RubyObject)value, prev); | private RVarmap new_dvar(ID id, VALUE value, RVarmap prev) { RVarmap map = new RVarmap(); map.id = id; map.val = value; map.next = prev; return map; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
return Qnil; | return ruby.getNil(); | VALUE rb_backref_get() { if (ruby.rubyScope.getLocalVars() != null) { return ruby.rubyScope.getLocalVars(1); } return Qnil; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
RVarmap vars = ruby_dyna_vars; while (vars != null) { if (vars.id == null) break; if (vars.id.equals(id)) return true; vars = vars.next; } return false; | return ruby.getInterpreter().getDynamicVars().isCurrent((RubyId)id); | boolean rb_dvar_curr(ID id) { RVarmap vars = ruby_dyna_vars; while (vars != null) { if (vars.id == null) break; if (vars.id.equals(id)) return true; vars = vars.next; } return false; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
RVarmap vars = ruby_dyna_vars; while (vars != null) { if (vars.id == null) break; if (vars.id.equals(id)) return true; vars = vars.next; } return false; | return ruby.getInterpreter().getDynamicVars().isDefined((RubyId)id); | boolean rb_dvar_defined(ID id) { RVarmap vars = ruby_dyna_vars; while (vars != null) { if (vars.id == null) break; if (vars.id.equals(id)) return true; vars = vars.next; } return false; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
ruby_dyna_vars = new_dvar(id, value, ruby_dyna_vars); | ruby.getInterpreter().getDynamicVars().push((RubyId)id, (RubyObject)value); | void rb_dvar_push(ID id, VALUE value) { ruby_dyna_vars = new_dvar(id, value, ruby_dyna_vars); } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
return Qnil; | return ruby.getNil(); | VALUE rb_lastline_get() { if (ruby.rubyScope.getLocalVars() != null) { return ruby.rubyScope.getLocalVars(0); } return Qnil; } | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
if (ruby_dyna_vars != null) | if (ruby.getInterpreter().getDynamicVars() != null) | top_local_init() { local_push(); lvtbl.cnt = ruby.rubyScope.getLocalTbl() != null ? ruby.rubyScope.getLocalTbl(0).intValue() : 0; if (lvtbl.cnt > 0) { lvtbl.tbl = new ID[lvtbl.cnt+3]; System.arraycopy(lvtbl.tbl, 0, ruby.rubyScope.getLocalTbl(), 0, lvtbl.cnt+1); } ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/8e00ad1c7ae96f50ae0bd521483380788f891b7b/parse.java/clean/org/jruby/parser/parse.java |
HierarchyBrowsing hb = (HierarchyBrowsing) applicationContext.getBean("hierarchyBrowsingService"); | public void testDuplicateImages() { HierarchyBrowsing hb = (HierarchyBrowsing) applicationContext.getBean("hierarchyBrowsingService"); OMEData data = (OMEData) applicationContext.getBean("data"); Set result = hb.findPDIHierarchies(data.imgsPDI); Set test = Utils.getImagesinPID(result); ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/LeftOuterJoinTest.java/clean/components/server/test/org/openmicroscopy/omero/server/itests/LeftOuterJoinTest.java | |
HierarchyBrowsing hb = (HierarchyBrowsing) applicationContext.getBean("hierarchyBrowsingService"); | public void testImageThumbnailExplodsOnHessianSerialization() { HierarchyBrowsing hb = (HierarchyBrowsing) applicationContext.getBean("hierarchyBrowsingService"); Set imgIds = new HashSet(); imgIds.add(new Integer(1191)); imgIds.add(new Integer(4665)); imgIds.add(new Integer(1304)... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/9570ef74198a070d72e77c417c9d25244a942de2/LeftOuterJoinTest.java/clean/components/server/test/org/openmicroscopy/omero/server/itests/LeftOuterJoinTest.java | |
text = removeAbsoluteReferences(text); | protected String prettify(String toPrettify) { String text = toPrettify; if(text!=null){ //Use JTidy to clean up the html Tidy tidy = new Tidy(); tidy.setXHTML(true); tidy.setXmlOut(true); tidy.setShowWarnings(false); tidy.setCharEncoding(Configuration.UTF8); ByteArrayInputStream bais; try { bais ... | 57000 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/57000/9b658e6c2776912956529ae2cfd007c902cc2a20/ArticleLocalizedItemBean.java/clean/src/java/com/idega/block/article/bean/ArticleLocalizedItemBean.java | |
if (!wiki.containsPage(pageName)) throw new PageActionException ("That page does not exist"); | public void perform(WikiSystem wiki, WebContext wc, WikiUser user, WikiPage page) throws PageActionException { String pageName = wc.getForm ("jump"); pageName = WikiUtil.guessWikiTitle(pageName, wiki); if (!wiki.containsPage(pageName)) throw new PageActionException ("That page does n... | 52513 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52513/a24ecb46046b93185ca4901af358792a86cb2c81/JumpToPageAction.java/clean/wiki/src/org/tcdi/opensource/wiki/servlet/JumpToPageAction.java | |
table.setValueAt(obj, i, ContextPane.BOOLEAN); | table.setValueAt(obj, i, ContextDialog.BOOLEAN); | private void selectAll(boolean b) { TableComponent table = view.table; Boolean obj = Boolean.FALSE; if (b) obj = Boolean.TRUE; for (int i = 0; i < table.getRowCount(); i++) table.setValueAt(obj, i, ContextPane.BOOLEAN); } | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/3db37517e6873d11567ee5822e769ab058e1abed/SelectionPaneMng.java/clean/SRC/org/openmicroscopy/shoola/agents/roi/results/stats/graphic/SelectionPaneMng.java |
view.initListeners(); | void initialize(ClipBoardUI view, ClipBoardModel model) { if (view == null) throw new NullPointerException("No view."); if (model == null) throw new NullPointerException("No model."); this.view = view; this.model = model; component.addChangeListener(this); model.getParen... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/464efde90db6bc5095c0a7e5952f51ad0f37ca86/ClipBoardControl.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/ClipBoardControl.java | |
view.initListeners(); | public void stateChanged(ChangeEvent ce) { Object source = ce.getSource(); if (source instanceof HiViewer) { HiViewer parentModel = model.getParentModel(); if (parentModel.getState() == HiViewer.READY) { parentModel.getBrowser().addPropertyChangeListener( ... | 54698 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/54698/464efde90db6bc5095c0a7e5952f51ad0f37ca86/ClipBoardControl.java/buggy/SRC/org/openmicroscopy/shoola/agents/hiviewer/clipboard/ClipBoardControl.java | |
if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ((RubyString) runtime.getGlobalVar("$FILENAME")).setValue("-"); | if (args.getLength() == 0) { if (currentFile == runtime.getGlobalVar("$stdin")) { return true; | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
init_p = true; first_p = false; | currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ((RubyString) runtime.getGlobalVar("$FILENAME")).setValue("-"); | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
if (next_p == 1) { next_p = 0; if (args.getLength() > 0) { String filename = ((RubyString) args.shift()).getValue(); ((RubyString) runtime.getGlobalVar("$FILENAME")).setValue(filename); | String filename = ((RubyString) args.shift()).getValue(); ((RubyString) runtime.getGlobalVar("$FILENAME")).setValue(filename); | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
if (filename.equals("-")) { currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); /*if (ruby_inplace_mode) { rb_warn("Can't do inplace edit for stdio"); rb_defout = rb_stdout; }*/ } else { File file = new File(filename); try { RubyInputStream inStream = new RubyInputStream(new BufferedInputStream(new FileInputStream(f... | if (filename.equals("-")) { currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); } else { File file = new File(filename); try { RubyInputStream inStream = new RubyInputStream(new BufferedInputStream(new FileInputStream(file))); | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
/*if (ruby_inplace_mode) { struct stat st, st2; VALUE str; FILE *fw; if (TYPE(rb_defout) == T_FILE && rb_defout != rb_stdout) { rb_io_close(rb_defout); } fstat(fileno(fr), &st); if (*ruby_inplace_mode) { str = rb_str_new2(fn); #ifdef NO_LONG_FNAME ruby_add_suffix(str, ruby_inplace_mode); #else rb_str_cat2(str, ruby_... | currentFile = new RubyFile(runtime, runtime.getClasses().getFileClass()); currentFile.initIO(inStream, null, filename); | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
currentFile = new RubyFile(runtime, runtime.getClasses().getFileClass()); currentFile.initIO(inStream, null, filename); } catch (FileNotFoundException fnfExcptn) { throw new IOError(runtime, fnfExcptn.getMessage()); } } /*if (binmode) rb_io_binmode(current_file);*/ } else { init_p = false; return false; | } catch (FileNotFoundException fnfExcptn) { throw new IOError(runtime, fnfExcptn.getMessage()); | protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java |
protected boolean nextArgsFile() { RubyArray args = (RubyArray)runtime.getGlobalVar("$*"); if (!init_p) { if (args.getLength() > 0) { next_p = 1; } else { next_p = -1; currentFile = (RubyIO) runtime.getGlobalVar("$stdin"); ... | 50661 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/50661/49c17b4ec0ae2e046650a9ace532caa461a65f20/RubyArgsFile.java/clean/src/org/jruby/RubyArgsFile.java | ||
URL url = SparkManager.getVCardManager().getAvatar(SparkManager.getSessionManager().getJID()); | URL url = SparkManager.getVCardManager().getAvatar(participantJID); | public ChatRoomImpl(final String participantJID, String participantNickname, String title) { this.participantJID = participantJID; this.participantNickname = participantNickname; AndFilter presenceFilter = new AndFilter(new PacketTypeFilter(Presence.class), new FromContainsFilter(participantJID... | 52006 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52006/d146fe0558b3a9a3c79746e51b1aa990ebe519a4/ChatRoomImpl.java/buggy/src/java/org/jivesoftware/spark/ui/rooms/ChatRoomImpl.java |
JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) { | JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) { | public Component getTableCellRendererComponent( JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) { super.getTableCellRendererComponent(table, value, isSelected, hasFocus, row, column); return this; } | 52006 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52006/f678f06c6fbc4a84079c230a0a7461759cb20755/ConferenceRooms.java/clean/src/java/org/jivesoftware/spark/ui/conferences/ConferenceRooms.java |
final ChatPreferences pref = (ChatPreferences)SparkManager.getPreferenceManager().getPreferenceData(ChatPreference.NAMESPACE); | LocalPreferences pref = SettingsManager.getLocalPreferences(); | private void createRoom() { ConferenceCreator mucRoomDialog = new ConferenceCreator(); final MultiUserChat groupChat = mucRoomDialog.createGroupChat(SparkManager.getMainWindow(), serviceName); final ChatPreferences pref = (ChatPreferences)SparkManager.getPreferenceManager().getPreferenceData(Ch... | 52006 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52006/f678f06c6fbc4a84079c230a0a7461759cb20755/ConferenceRooms.java/clean/src/java/org/jivesoftware/spark/ui/conferences/ConferenceRooms.java |
EqualCondition(Condition l, Condition r) { _l = l; _r = r; } | EqualCondition(Macro l, Macro r) { _l = l; _r = r; } | EqualCondition(Condition l, Condition r) { _l = l; _r = r; } | 52513 /local/tlutelli/issta_data/temp/all_java5context/java/2006_temp/2006/52513/4e82bcbfa0293596ccebd7abff0c093e9937d6ba/EqualConditionBuilder.java/buggy/webmacro/src/org/webmacro/engine/EqualConditionBuilder.java |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.