From ea8d875a8e843662af89517c15c72dded1d41d5d Mon Sep 17 00:00:00 2001
From: dehui333 <dehui333@gmail.com>
Date: Tue, 22 Oct 2024 15:17:12 +0800
Subject: [PATCH] reduce -m for minimap2 parameters

---
 scripts/create_batched_alignments.sh | 2 +-
 src/mm2.rs                           | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/scripts/create_batched_alignments.sh b/scripts/create_batched_alignments.sh
index 1411c72..7d19608 100755
--- a/scripts/create_batched_alignments.sh
+++ b/scripts/create_batched_alignments.sh
@@ -26,7 +26,7 @@ if [ ! -d $outdir ]; then
 	mkdir $outdir
 fi
 
-$minimap2 -K8g -cx ava-ont -k25 -w17 -e200 -r150 -m2500 -z200 -f 0.005 -t${num_threads} --dual=yes $reads $reads | $batch_script $rids - $outdir
+$minimap2 -K8g -cx ava-ont -k25 -w17 -e200 -r150 -m1500 -z200 -f 0.005 -t${num_threads} --dual=yes $reads $reads | $batch_script $rids - $outdir
 
 
 
diff --git a/src/mm2.rs b/src/mm2.rs
index 40a43d4..ff1765c 100644
--- a/src/mm2.rs
+++ b/src/mm2.rs
@@ -23,7 +23,7 @@ pub(crate) fn call_mm2<P: AsRef<Path>>(
             "-w17",
             "-e200",
             "-r150",
-            "-m2500",
+            "-m1500",
             "-f0.005",
             "-z200",
             "--dual=yes",