void AlignmentTestTrees::checkCallBack(hal::AlignmentConstPtr alignment)
{
CuAssertTrue(_testCase, alignment->getRootName() == "NewRoot");
CuAssertTrue(_testCase, alignment->getNewickTree() ==
"((Leaf:10,Leaf1:3,Leaf2:5.1,Leaf3:6.1,Leaf4:7.1)Root:15)NewRoot;");
CuAssertTrue(_testCase, alignment->getBranchLength("Root", "Leaf") == 10.0);
CuAssertTrue(_testCase, alignment->getBranchLength("Root", "Leaf1") == 3.0);
vector<string> children = alignment->getChildNames("Root");
CuAssertTrue(_testCase, children.size() == 5);
vector<string> leaves = alignment->getLeafNamesBelow("Leaf");
CuAssertTrue(_testCase, leaves.size() == 0);
leaves = alignment->getLeafNamesBelow("NewRoot");
CuAssertTrue(_testCase, leaves.size() == 5);
for (size_t i = 0; i < leaves.size(); ++i)
{
CuAssertTrue(_testCase, leaves[i][0] == 'L');
}
leaves = alignment->getLeafNamesBelow("Root");
CuAssertTrue(_testCase, leaves.size() == 5);
for (size_t i = 0; i < leaves.size(); ++i)
{
CuAssertTrue(_testCase, leaves[i][0] == 'L');
}
}
void AlignmentTestBadPathError::checkCallBack(hal::AlignmentConstPtr alignment)
{
string badPath(_checkPath);
badPath += "blarg";
try {
((Alignment*)alignment.get())->open(badPath, true);
}
catch(...)
{
return;
}
CuAssertTrue(_testCase, false);
}
void AlignmentTestBadPathError::checkCallBack(hal::AlignmentConstPtr alignment)
{
#ifndef ENABLE_UDC
// note: udc just exits here so test wont work
string badPath(_checkPath);
badPath += "blarg";
try {
((Alignment*)alignment.get())->open(badPath, true);
}
catch(...)
{
return;
}
CuAssertTrue(_testCase, false);
#endif
}
void AlignmentTestEmpty::checkCallBack(hal::AlignmentConstPtr alignment)
{
CuAssertTrue(_testCase, alignment->getNumGenomes() == 0);
}