From 46aef700c20a31e6eefd32761db00184b8dc109b Mon Sep 17 00:00:00 2001
From: kojix2 <2xijok@gmail.com>
Date: Mon, 18 May 2026 14:39:41 +0900
Subject: [PATCH] Fix base modification filter canonical base lookup

---
 src/main/java/org/igv/sam/mods/BaseModificationRenderer.java | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/src/main/java/org/igv/sam/mods/BaseModificationRenderer.java b/src/main/java/org/igv/sam/mods/BaseModificationRenderer.java
index 1d400cef5..9806804e8 100644
--- a/src/main/java/org/igv/sam/mods/BaseModificationRenderer.java
+++ b/src/main/java/org/igv/sam/mods/BaseModificationRenderer.java
@@ -69,7 +69,7 @@ public static void drawBlock(double bpStart, double locScale, Rectangle rowRect,
                 if (bmSet.containsPosition(i)) {
                     int lh = Byte.toUnsignedInt(bmSet.getLikelihoods().get(i));
                     noModLh -= lh;
-                    if ((filter == null || filter.pass(bmSet.getModification(), canonicalBase)) && (modification == null || lh > maxLh)) {
+                    if ((filter == null || filter.pass(bmSet.getModification(), bmSet.getCanonicalBase())) && (modification == null || lh > maxLh)) {
                         modification = bmSet.getModification();
                         canonicalBase = bmSet.getCanonicalBase();
                         maxLh = lh;
@@ -124,4 +124,3 @@ public static void drawBlock(double bpStart, double locScale, Rectangle rowRect,
     }
 }
 
-