public static void test(final AbstractGraphData origin) {
origin
.getGenomes()
.stream()
.map(Genome::getIdentifier)
.forEach(
string -> {
List<DataNode> nodeList = origin.getNodeListClone();
List<String> list = new ArrayList<>();
list.add(string);
new GenomeFilter(list).filter(nodeList);
List<Edge> edgeList = origin.getEdgeListClone();
EdgeUtil.removeAllDeadEdges(edgeList, nodeList);
GraphData gd = new GraphData(origin, nodeList, edgeList, origin.getGenomes());
WrappedGraphData wgd = new WrappedGraphData(gd);
Wrapper node = getFirstNode(wgd);
Set<Wrapper> set = new HashSet<>(wgd.getPositionedNodes());
set.remove(node);
while (true) {
if (node.getOutgoing().size() == 1) {
node = node.getOutgoing().get(0);
} else if (node.getOutgoing().size() > 1) {
int min = Integer.MAX_VALUE;
Wrapper newNode = null;
for (Wrapper out : node.getOutgoing()) {
if (out.getPreviousNodesCount() < min) {
min = out.getPreviousNodesCount();
newNode = out;
}
}
node = newNode;
} else {
break;
}
set.remove(node);
}
if (set.size() != 0) {
try {
throw new DuplicateGenomeNameException(
"Genome is not fully connected.",
"Parse test. Found " + set.size() + " remaining nodes.");
} catch (Exception e) {
e.printStackTrace();
}
Assert.fail();
}
});
}
private static Wrapper getFirstNode(WrappedGraphData wgd) {
for (Wrapper node : wgd.getPositionedNodes()) {
if (node.getPreviousNodesCount() == 0) {
return node;
}
}
return null;
}