void StopRule::saveCheckpoint() {
checkpoint->startStruct("StopRule");
CKP_SAVE(curIteration);
CKP_SAVE(start_real_time);
CKP_VECTOR_SAVE(time_vec);
checkpoint->endStruct();
CheckpointFactory::saveCheckpoint();
}
void RateInvar::saveCheckpoint() {
checkpoint->startStruct("RateInvar");
CKP_SAVE(p_invar);
// CKP_SAVE(fix_p_invar);
// CKP_SAVE(optimize_p_invar);
checkpoint->endStruct();
RateHeterogeneity::saveCheckpoint();
}
void RateGamma::saveCheckpoint() {
startCheckpoint();
CKP_SAVE(gamma_shape);
// CKP_SAVE(fix_gamma_shape);
// CKP_SAVE(cut_median);
// CKP_SAVE(ncategory);
endCheckpoint();
RateHeterogeneity::saveCheckpoint();
}
void PartitionModel::saveCheckpoint() {
checkpoint->startStruct("PartitionModel");
CKP_SAVE(linked_alpha);
PhyloSuperTree *tree = (PhyloSuperTree*)site_rate->getTree();
int part = 0;
for (PhyloSuperTree::iterator it = tree->begin(); it != tree->end(); it++, part++) {
checkpoint->startStruct(tree->part_info[part].name);
(*it)->getModelFactory()->saveCheckpoint();
checkpoint->endStruct();
}
checkpoint->endStruct();
CheckpointFactory::saveCheckpoint();
}
