From 48c27ee437771a815bff4fde413e9d9e09fa9f62 Mon Sep 17 00:00:00 2001
From: Calvin Morrison <mutantturkey@gmail.com>
Date: Fri, 18 Apr 2014 11:59:01 -0400
Subject: use regular total count

---
 SelectiveWholeGenomeAmplification | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/SelectiveWholeGenomeAmplification b/SelectiveWholeGenomeAmplification
index 0521ef5..8fb5e4f 100755
--- a/SelectiveWholeGenomeAmplification
+++ b/SelectiveWholeGenomeAmplification
@@ -31,7 +31,7 @@ check_mers() {
 	for (( mer = min_mer_range; mer <= max_mer_range; mer++)) ; do 
 		if [[ ! -e "$counts"-counts-"$mer" ]]; then
 			echo "    checking $mer mers for $fasta_file"
-			kmer_continuous_count -c -i "$fasta_file" -k "$mer" -l -n > "$counts"-counts-"$mer" || exit 1
+			kmer_total_count -c -i "$fasta_file" -k "$mer" -l -n > "$counts"-counts-"$mer" || exit 1
 		else 
 			echo "    $mer-mers already done for $fasta_file (assuming no change)"
 		fi
-- 
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