/** Restore the additional stored state */
protected void restoreState() {
updateSiteModel =
true; // this is required to upload the categoryRates to BEAGLE after the restore
partialBufferHelper.restoreState();
substitutionModelDelegate.restoreState();
if (useScaleFactors || useAutoScaling) {
scaleBufferHelper.restoreState();
int[] tmp = storedScaleBufferIndices;
storedScaleBufferIndices = scaleBufferIndices;
scaleBufferIndices = tmp;
// rescalingCount = storedRescalingCount;
}
updateRestrictedNodePartials = true;
super.restoreState();
}
