mods to trim.seqs

[mothur.git] / mothur.h

diff --git a/mothur.h b/mothur.h
index 337e5b33a6b1d8100effe484c230d42c7fd93f58..6e5833f7032aafba146f8b92cd30bacc149ab931 100644 (file)
--- a/mothur.h
+++ b/mothur.h
@@ -36,6 +36,7 @@
 #include <map>
 #include <string>
 #include <list>
+#include <string.h>
 
 //math
 #include <cmath>
@@ -56,6 +57,7 @@
        #include <sys/wait.h>
        #include <sys/time.h>
        #include <sys/resource.h>
+       #include <sys/stat.h>
        #include <unistd.h>
        
        #ifdef USE_READLINE
@@ -122,6 +124,23 @@ struct distlinePair {
        int end;
        
 };
+/***************************************************************/
+struct spearmanRank {
+       string name;
+       float score;
+       
+       spearmanRank(string n, float s) : name(n), score(s) {}
+};
+//********************************************************************************************************************
+//sorts highest to lowest
+inline bool compareSpearman(spearmanRank left, spearmanRank right){
+       return (left.score > right.score);      
+} 
+//********************************************************************************************************************
+//sorts lowest to highest
+inline bool compareSpearmanReverse(spearmanRank left, spearmanRank right){
+       return (left.score < right.score);      
+} 
 /************************************************************/
 //sorts lowest to highest
 inline bool compareDistLinePairs(distlinePair left, distlinePair right){