Program: 160656
Project: 160656
Buggy source:
@Override public Integer checkin(final Long poid,final String comment,String deserializerName,Long fileSize,DataHandler dataHandler,Boolean merge,Boolean sync) throws ServerException, UserException {
  requireAuthenticationAndRunningServer();
  final BimDatabaseSession session=bimServer.getDatabase().createSession(true);
  try {
    File homeDirIncoming=new File(bimServer.getHomeDir(),"String_Node_Str");
    if (!homeDirIncoming.isDirectory()) {
      homeDirIncoming.mkdir();
    }
    File userDirIncoming=new File(homeDirIncoming,getCurrentUser().getUsername());
    if (!userDirIncoming.exists()) {
      userDirIncoming.mkdir();
    }
    InputStream inputStream=null;
    if (dataHandler.getName() == null || dataHandler.getName().trim().equals("String_Node_Str")) {
      inputStream=dataHandler.getInputStream();
    }
 else {
      inputStream=new MultiplexingInputStream(dataHandler.getInputStream(),new FileOutputStream(new File(userDirIncoming,dataHandler.getName())));
    }
    try {
      EmfDeserializer deserializer=bimServer.getEmfDeserializerFactory().createDeserializer(deserializerName);
      try {
        deserializer.init(bimServer.getPluginManager().requireSchemaDefinition());
      }
 catch (      PluginException e) {
        throw new UserException(e);
      }
      IfcModelInterface model=deserializer.read(inputStream,dataHandler.getName(),false,fileSize);
      BimDatabaseAction<ConcreteRevision> action=new CheckinPart1DatabaseAction(session,accessMethod,poid,currentUoid,model,comment);
      GetUserByUoidDatabaseAction getUserByUoidDatabaseAction=new GetUserByUoidDatabaseAction(session,accessMethod,currentUoid);
      User userByUoid=session.executeAction(getUserByUoidDatabaseAction,DEADLOCK_RETRIES);
      ConcreteRevision revision=session.executeAndCommitAction(action,DEADLOCK_RETRIES);
      session.close();
      CheckinPart2DatabaseAction createCheckinAction=new CheckinPart2DatabaseAction(bimServer,null,accessMethod,model,currentUoid,revision.getOid(),merge);
      SCheckinResult result=new SCheckinResult();
      result.setProjectId(revision.getProject().getOid());
      LongCheckinAction longAction=new LongCheckinAction(bimServer,userByUoid,createCheckinAction);
      bimServer.getLongActionManager().start(longAction);
      if (sync) {
        longAction.waitForCompletion();
      }
      return longAction.getId();
    }
 catch (    UserException e) {
      throw e;
    }
catch (    DeserializeException e) {
      throw new UserException(e);
    }
catch (    Exception e) {
      LOGGER.error("String_Node_Str",e);
      new ServerException("String_Node_Str",e);
    }
 finally {
      inputStream.close();
    }
  }
 catch (  IOException e) {
    LOGGER.error("String_Node_Str",e);
    throw new UserException("String_Node_Str",e);
  }
 finally {
    session.close();
  }
  return -1;
}

Fixed version (ground truth):
@Override public Integer checkin(final Long poid,final String comment,String deserializerName,Long fileSize,DataHandler dataHandler,Boolean merge,Boolean sync) throws ServerException, UserException {
  requireAuthenticationAndRunningServer();
  final BimDatabaseSession session=bimServer.getDatabase().createSession(true);
  try {
    File homeDirIncoming=new File(bimServer.getHomeDir(),"String_Node_Str");
    if (!homeDirIncoming.isDirectory()) {
      homeDirIncoming.mkdir();
    }
    File userDirIncoming=new File(homeDirIncoming,getCurrentUser().getUsername());
    if (!userDirIncoming.exists()) {
      userDirIncoming.mkdir();
    }
    InputStream inputStream=null;
    if (dataHandler.getName() == null || dataHandler.getName().trim().equals("String_Node_Str")) {
      inputStream=dataHandler.getInputStream();
    }
 else {
      inputStream=new MultiplexingInputStream(dataHandler.getInputStream(),new FileOutputStream(new File(userDirIncoming,dataHandler.getName())));
    }
    try {
      EmfDeserializer deserializer=bimServer.getEmfDeserializerFactory().createDeserializer(deserializerName);
      if (deserializer == null) {
        throw new UserException("String_Node_Str" + deserializerName + "String_Node_Str");
      }
      try {
        deserializer.init(bimServer.getPluginManager().requireSchemaDefinition());
      }
 catch (      PluginException e) {
        throw new UserException(e);
      }
      IfcModelInterface model=deserializer.read(inputStream,dataHandler.getName(),false,fileSize);
      BimDatabaseAction<ConcreteRevision> action=new CheckinPart1DatabaseAction(session,accessMethod,poid,currentUoid,model,comment);
      GetUserByUoidDatabaseAction getUserByUoidDatabaseAction=new GetUserByUoidDatabaseAction(session,accessMethod,currentUoid);
      User userByUoid=session.executeAction(getUserByUoidDatabaseAction,DEADLOCK_RETRIES);
      ConcreteRevision revision=session.executeAndCommitAction(action,DEADLOCK_RETRIES);
      session.close();
      CheckinPart2DatabaseAction createCheckinAction=new CheckinPart2DatabaseAction(bimServer,null,accessMethod,model,currentUoid,revision.getOid(),merge);
      SCheckinResult result=new SCheckinResult();
      result.setProjectId(revision.getProject().getOid());
      LongCheckinAction longAction=new LongCheckinAction(bimServer,userByUoid,createCheckinAction);
      bimServer.getLongActionManager().start(longAction);
      if (sync) {
        longAction.waitForCompletion();
      }
      return longAction.getId();
    }
 catch (    UserException e) {
      throw e;
    }
catch (    DeserializeException e) {
      throw new UserException(e);
    }
catch (    Exception e) {
      LOGGER.error("String_Node_Str",e);
      new ServerException("String_Node_Str",e);
    }
 finally {
      inputStream.close();
    }
  }
 catch (  IOException e) {
    LOGGER.error("String_Node_Str",e);
    throw new UserException("String_Node_Str",e);
  }
 finally {
    session.close();
  }
  return -1;
}