From d74c19c8fceac333f9420a898b85ad0b1a8a85ff Mon Sep 17 00:00:00 2001
From: Calvin Morrison <mutantturkey@gmail.com>
Date: Wed, 11 Sep 2013 10:25:14 -0400
Subject: update convert_kmer_to_index for brevity and clarity

---
 kmer_utils.c | 20 +++++++-------------
 1 file changed, 7 insertions(+), 13 deletions(-)

(limited to 'kmer_utils.c')

diff --git a/kmer_utils.c b/kmer_utils.c
index ae01b05..7647965 100644
--- a/kmer_utils.c
+++ b/kmer_utils.c
@@ -16,40 +16,34 @@
 //  long kmer - how long of a index value you want to return
 //  long error_pos - what index to return for a non ACGT character
 //
-long convert_kmer_to_index(char *str, long kmer, long error_pos) {
+inline long convert_kmer_to_index(char *str, unsigned long kmer, long error_pos) {
 
   char **ptr = NULL;
   char vals[kmer];
-  long i = 0;
-  long ret = 0;
+  unsigned long i = 0;
 
   for(i = 0; i < kmer; i++) {
-    int val = 0;
     switch(str[i]) {
       case 'a':
       case 'A':
-        val = 48;
+        vals[i] = '0';
         break;
       case 'c':
       case 'C':
-        val = 49;
+        vals[i] = '1';
         break;
       case 'g':
       case 'G':
-        val = 50;
+        vals[i] = '2';
         break;
       case 't':
       case 'T':
-        val = 51;
+        vals[i] = '3';
         break;
       default:
         return error_pos; 
     }
-
-
-    vals[i] = val; 
   }
 
-  ret = strtol(vals, ptr, 4);
-  return ret;
+  return strtol(vals, ptr, 4);
 }
-- 
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