Program: 74599
Project: 74599
Buggy source:
/** 
 * Call the base class to perform standard preinitialize(), and, if this is the master copy, proceed to create   {@link #nInstances}-1 additional copies, and link them to the same input/output ports this master is connected to.
 * @exception IllegalActionException If cloning the additionalcopies fails, or if any ports are not connected to multiports.
 */
public void preinitialize() throws IllegalActionException {
  super.preinitialize();
  if (!_isMasterCopy) {
    return;
  }
  if ((getDirector() == null) || (getDirector().getContainer() != this)) {
    throw new IllegalActionException(this,getFullName() + "String_Node_Str");
  }
  int N=((IntToken)nInstances.getToken()).intValue();
  instance.setToken(new IntToken(0));
  TypedCompositeActor container=(TypedCompositeActor)getContainer();
  for (int i=1; i < N; i++) {
    MultiInstanceComposite clone=(MultiInstanceComposite)container.getEntity(getName() + "String_Node_Str" + i);
    if (clone == null) {
      try {
        clone=(MultiInstanceComposite)_cloneClone(container.workspace());
      }
 catch (      CloneNotSupportedException ex) {
        throw new IllegalActionException(this,ex,"String_Node_Str");
      }
      try {
        clone.setName(getName() + "String_Node_Str" + i);
        clone.setContainer(container);
        clone.validateSettables();
        if (_debugging) {
          _debug("String_Node_Str" + clone.getFullName());
        }
        Iterator ports=portList().iterator();
        while (ports.hasNext()) {
          TypedIOPort port=(TypedIOPort)ports.next();
          TypedIOPort newPort=(TypedIOPort)clone.getPort(port.getName());
          List relations=port.linkedRelationList();
          if (relations == null || relations.size() < 1) {
            continue;
          }
          if (relations.size() > 1) {
            throw new IllegalActionException(port,"String_Node_Str");
          }
          TypedIORelation relation=(TypedIORelation)relations.get(0);
          TypedIORelation oldRelation=relation;
          Iterator otherPorts=relation.linkedPortList(port).iterator();
          boolean isRelationCreated=false;
          boolean isPortLinked=false;
          while (otherPorts.hasNext()) {
            TypedIOPort otherPort=(TypedIOPort)otherPorts.next();
            if (port.isOutput() && !otherPort.isMultiport()) {
              throw new IllegalActionException(this,getFullName() + "String_Node_Str" + "String_Node_Str"+ port.getName()+ "String_Node_Str");
            }
            boolean isInsideLinked=otherPort.isInsideGroupLinked(oldRelation);
            if ((port.isInput() && ((!isInsideLinked && otherPort.isOutput()) || (isInsideLinked && otherPort.isInput()))) || (port.isOutput() && ((!isInsideLinked && otherPort.isInput()) || (isInsideLinked && otherPort.isOutput())))) {
              if (otherPort.isMultiport()) {
                if (!isRelationCreated) {
                  relation=new TypedIORelation(container,"String_Node_Str" + getName() + "String_Node_Str"+ i+ "String_Node_Str"+ port.getName());
                  isRelationCreated=true;
                  if (_debugging) {
                    _debug(port.getFullName() + "String_Node_Str" + relation.getFullName());
                  }
                }
                otherPort.link(relation);
              }
              if (!isPortLinked) {
                newPort.link(relation);
                isPortLinked=true;
                if (_debugging) {
                  _debug(newPort.getFullName() + "String_Node_Str" + relation.getFullName());
                }
              }
            }
          }
        }
        clone.instance.setToken(new IntToken(i));
      }
 catch (      NameDuplicationException ex) {
        throw new IllegalActionException(this,ex,"String_Node_Str");
      }
      clone.preinitialize();
    }
  }
}

Fixed version (ground truth):
/** 
 * Call the base class to perform standard preinitialize(), and, if this is the master copy, proceed to create   {@link #nInstances}-1 additional copies, and link them to the same input/output ports this master is connected to.
 * @exception IllegalActionException If cloning the additionalcopies fails, or if any ports are not connected to multiports.
 */
public void preinitialize() throws IllegalActionException {
  super.preinitialize();
  if (!_isMasterCopy) {
    return;
  }
  if ((getDirector() == null) || (getDirector().getContainer() != this)) {
    throw new IllegalActionException(this,getFullName() + "String_Node_Str");
  }
  int N=((IntToken)nInstances.getToken()).intValue();
  instance.setToken(new IntToken(0));
  TypedCompositeActor container=(TypedCompositeActor)getContainer();
  for (int i=1; i < N; i++) {
    MultiInstanceComposite clone=(MultiInstanceComposite)container.getEntity(getName() + "String_Node_Str" + i);
    if (clone == null) {
      try {
        clone=(MultiInstanceComposite)_cloneClone(container.workspace());
      }
 catch (      CloneNotSupportedException ex) {
        throw new IllegalActionException(this,ex,"String_Node_Str");
      }
      try {
        clone.setName(getName() + "String_Node_Str" + i);
        clone.setContainer(container);
        clone.validateSettables();
        if (_debugging) {
          _debug("String_Node_Str" + clone.getFullName());
        }
        Iterator ports=portList().iterator();
        while (ports.hasNext()) {
          TypedIOPort port=(TypedIOPort)ports.next();
          TypedIOPort newPort=(TypedIOPort)clone.getPort(port.getName());
          List relations=port.linkedRelationList();
          if (relations == null || relations.size() < 1) {
            continue;
          }
          if (relations.size() > 1) {
            throw new IllegalActionException(port,"String_Node_Str");
          }
          TypedIORelation relation=(TypedIORelation)relations.get(0);
          TypedIORelation oldRelation=relation;
          Iterator otherPorts=relation.linkedPortList(port).iterator();
          boolean isRelationCreated=false;
          boolean isPortLinked=false;
          while (otherPorts.hasNext()) {
            TypedIOPort otherPort=(TypedIOPort)otherPorts.next();
            if (port.isOutput() && !otherPort.isMultiport()) {
              throw new IllegalActionException(this,getFullName() + "String_Node_Str" + "String_Node_Str"+ port.getName()+ "String_Node_Str");
            }
            boolean isInsideLinked=otherPort.isInsideGroupLinked(oldRelation);
            if ((port.isInput() && ((!isInsideLinked && otherPort.isOutput()) || (isInsideLinked && otherPort.isInput()))) || (port.isOutput() && ((!isInsideLinked && otherPort.isInput()) || (isInsideLinked && otherPort.isOutput())))) {
              if (otherPort.isMultiport()) {
                if (!isRelationCreated) {
                  relation=new TypedIORelation(container,"String_Node_Str" + getName() + "String_Node_Str"+ i+ "String_Node_Str"+ port.getName());
                  relation.setPersistent(false);
                  isRelationCreated=true;
                  if (_debugging) {
                    _debug(port.getFullName() + "String_Node_Str" + relation.getFullName());
                  }
                }
                otherPort.link(relation);
              }
              if (!isPortLinked) {
                newPort.link(relation);
                isPortLinked=true;
                if (_debugging) {
                  _debug(newPort.getFullName() + "String_Node_Str" + relation.getFullName());
                }
              }
            }
          }
        }
        clone.instance.setToken(new IntToken(i));
      }
 catch (      NameDuplicationException ex) {
        throw new IllegalActionException(this,ex,"String_Node_Str");
      }
      clone.preinitialize();
    }
  }
}