From 75b61da3ab27712bd96690b1e52a4c3c12788d49 Mon Sep 17 00:00:00 2001
From: Calvin Morrison <mutantturkey@gmail.com>
Date: Mon, 14 Apr 2014 13:15:47 -0400
Subject: merge

---
 kmer_locations.c | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

(limited to 'kmer_locations.c')

diff --git a/kmer_locations.c b/kmer_locations.c
index 56bf934..a6a2dc9 100644
--- a/kmer_locations.c
+++ b/kmer_locations.c
@@ -223,7 +223,6 @@ int main(int argc, char **argv) {
 	}
 
 
-	unsigned long long sequence = 0;
 	unsigned long long global_position = 0;
 
 	while ((read = getdelim(&line, &len, '>', fh)) != -1) {
@@ -241,6 +240,9 @@ int main(int argc, char **argv) {
 		// strip out all other newlines to handle multiline sequences
 		size_t seq_length = strnstrip(seq, '\n', strlen(seq));
 
+		if(seq[seq_length - 1] == '>') 
+			seq_length --;
+
 		for(k = 0; k < seq_length; k++) {
 			seq[k] = alpha[(int)seq[k]];
 		}
@@ -266,7 +268,6 @@ int main(int argc, char **argv) {
 		if(seq_length != 0) {
 			seq_length--;
 		}
-		sequence++;
 		global_position += seq_length;
 	}
 
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