From 906186bffd54b13253d5a1fd80edd61aa6510f53 Mon Sep 17 00:00:00 2001
From: Simone Maestri <simone.maestri@hotmail.it>
Date: Wed, 18 Dec 2019 08:44:14 +0100
Subject: [PATCH] Update Calculate_error_rate.sh

---
 Calculate_error_rate.sh | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/Calculate_error_rate.sh b/Calculate_error_rate.sh
index fd5cb12..85c968b 100644
--- a/Calculate_error_rate.sh
+++ b/Calculate_error_rate.sh
@@ -19,8 +19,8 @@
 READS=$1
 REFERENCE=$2
 
-MINIMAP2=/path/to/minimap2
-SAMTOOLS=/path/to/samtools
+MINIMAP2=minimap2 #specify full path if you want to use a version of the program which is not in your PATH
+SAMTOOLS=samtools #specify full path if you want to use a version of the program which is not in your PATH
 
 SAMPLE_NAME=$(echo $(basename $READS) | sed 's/\.fast.//g')
 WORKING_DIR=$(dirname $(realpath $READS))