public long[][] reduce(List<CallableLoci.CallableBaseState> comps, long[][] sum) {
if (comps != null) {
CallableLoci.CallableBaseState comp1 = comps.get(0);
CallableLoci.CallableBaseState comp2 = comps.get(1);
sum[comp1.getState().ordinal()][comp2.getState().ordinal()]++;
}
return sum;
}
// --------------------------------------------------------------------------------------------------------------
//
// map
//
// --------------------------------------------------------------------------------------------------------------
public List<CallableLoci.CallableBaseState> map(
RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context) {
if (tracker != null) {
CallableLoci.CallableBaseState comp1 = getCallableBaseState(tracker, compTrack1);
CallableLoci.CallableBaseState comp2 = getCallableBaseState(tracker, compTrack2);
if (printState != null
&& comp1.getState() == printState1
&& comp2.getState() == printState2) {
out.printf(
"%s %s %s %s%n",
comp1.getLocation(), comp1.getState(), comp2.getLocation(), comp2.getState());
}
return Arrays.asList(comp1, comp2);
} else {
return null;
}
}
