From 7008b39a3e94df501698b2ec496a567134ed2e4e Mon Sep 17 00:00:00 2001
From: bbimber <bbimber@gmail.com>
Date: Sat, 24 Aug 2024 21:16:03 -0700
Subject: [PATCH] Bugfix to CellRangerVDJWrapper

---
 .../api-src/org/labkey/api/singlecell/CellHashingService.java   | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/singlecell/api-src/org/labkey/api/singlecell/CellHashingService.java b/singlecell/api-src/org/labkey/api/singlecell/CellHashingService.java
index 8642df2c8..97b12c45f 100644
--- a/singlecell/api-src/org/labkey/api/singlecell/CellHashingService.java
+++ b/singlecell/api-src/org/labkey/api/singlecell/CellHashingService.java
@@ -170,7 +170,7 @@ public static CellHashingParameters createFromJson(BARCODE_TYPE type, File webse
             ret.majorityConsensusThreshold = params.get("majorityConsensusThreshold") == null ? null : params.getDouble("majorityConsensusThreshold");
             ret.minAllowableDoubletRateFilter = params.get("minAllowableDoubletRateFilter") == null ? null : params.getDouble("minAllowableDoubletRateFilter");
             ret.callerDisagreementThreshold = params.get("callerDisagreementThreshold") == null ? null : params.getDouble("callerDisagreementThreshold");
-            ret.doTSNE = params.get("doTSNE") == null || params.optBoolean("doTSNE", false);
+            ret.doTSNE = params.optBoolean("doTSNE", false);
             ret.retainRawCountFile = params.optBoolean("retainRawCountFile", true);
             ret.failIfUnexpectedHtosFound = params.optBoolean("failIfUnexpectedHtosFound", true);
             ret.htoReadset = htoReadset;