void printChildren(ostream& os, AlignmentConstPtr alignment,
const string& genomeName)
{
vector<string> children = alignment->getChildNames(genomeName);
for (size_t i = 0; i < children.size(); ++i)
{
os << children[i];
if (i != children.size() - 1)
{
os << " ";
}
}
os << endl;
}
void hal::validateAlignment(AlignmentConstPtr alignment)
{
deque<string> bfQueue;
bfQueue.push_back(alignment->getRootName());
while (bfQueue.empty() == false)
{
string name = bfQueue.back();
bfQueue.pop_back();
if (name.empty() == false)
{
const Genome* genome = alignment->openGenome(name);
if (genome == NULL)
{
throw hal_exception("Failure to open genome " + name);
}
validateGenome(genome);
vector<string> childNames = alignment->getChildNames(name);
for (size_t i = 0; i < childNames.size(); ++i)
{
bfQueue.push_front(childNames[i]);
}
}
}
}