I apologize for the delay. I just uploaded the data in a directory called AnjaliRaja.tgz.
The Volume_rot dataset consists of the structural images.
The ROIbw dataset is the overlay with filled-in ROIs.
On ROIbw you can see values 1-6 displayed in their "normal" colors before the "switch". On axial slice 154 you can see the displayed color for value 1 (green blob in LH) and value 2 (green blob in RH) after the switch.
I have not been able to determine if the problem lies in just the color display or the actual values assigned to the ROIs. If someone could ascertain that the values are not affected after the "switch", I would appreciate it.
thanks
Anjali