From 9ae38bf2473df36279ad446603b142c0354dff69 Mon Sep 17 00:00:00 2001
From: eugenefischer <66030419+eugenefischer@users.noreply.github.com>
Date: Wed, 21 Sep 2022 15:59:23 -0500
Subject: [PATCH] Fix bug in correct match counter

---
 src/main/java/Simulator.java | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/main/java/Simulator.java b/src/main/java/Simulator.java
index 5fb414b..08761c7 100644
--- a/src/main/java/Simulator.java
+++ b/src/main/java/Simulator.java
@@ -106,7 +106,7 @@ public class Simulator implements GraphModificationFunctions {
         //List<Integer> alphaVertices = new ArrayList<>(plateVtoAMap.keySet()); //This will work because LinkedHashMap preserves order of entry
         List<Vertex> alphaVertices = new ArrayList<>();
         //start with map of all alphas mapped to vertex values, get occupancy from the alphaWellCounts map
-        for (Integer seq: plateAtoVMap.keySet()) {
+        for (Integer seq : plateAtoVMap.keySet()) {
             Vertex alphaVertex = new Vertex(SequenceType.CDR3_ALPHA, seq, alphaWellCounts.get(seq), plateAtoVMap.get(seq));
             alphaVertices.add(alphaVertex);
         }
@@ -236,7 +236,7 @@ public class Simulator implements GraphModificationFunctions {
             //Integer target = graph.getEdgeTarget(e);
             //The match map is all matches found, not just true matches!
             matchMap.put(source.getSequence(), target.getSequence());
-            check = target.getOccupancy().equals(distCellsMapAlphaKey.get(source.getSequence()));
+            check = target.getSequence().equals(distCellsMapAlphaKey.get(source.getSequence()));
             //check = plateVtoBMap.get(target).equals(distCellsMapAlphaKey.get(plateVtoAMap.get(source)));
             if(check) {
                 trueCount++;