From 036bae0bb045691bbc348ae4896da47c1ed44bb6 Mon Sep 17 00:00:00 2001
From: Glenn Hickey <glenn.hickey@gmail.com>
Date: Wed, 14 Jan 2026 11:23:28 -0500
Subject: [PATCH] revert post-zoonomia outgroup changes

---
 src/cactus/cactus_progressive_config.xml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/cactus/cactus_progressive_config.xml b/src/cactus/cactus_progressive_config.xml
index f1e8d5694..2c68e332e 100644
--- a/src/cactus/cactus_progressive_config.xml
+++ b/src/cactus/cactus_progressive_config.xml
@@ -516,10 +516,10 @@
 		<!-- max_num_outgroups: maximum number of outgroups per alignment job-->
 		<!-- extra_chrom_outgroups: if max_num_outgroups is not sufficent to satisfy sex chromosome requirements of an ancestor while still using nearest species, allow up to this many extra (when -1 set to the number of unique sex chromosomes for the ancestor).  -->
 		<outgroup
-			strategy="greedyLeavesPreference"
+			strategy="greedyPreference"
 			threshold="0"
 			ancestor_quality_fraction="0.75"
-			max_num_outgroups="2"
+			max_num_outgroups="3"
 			extra_chrom_outgroups="-1"
 			/>