fixed bug with trim.seqs- when a file is blank for a grouping mothur removed it,...

[mothur.git] / blastalign.hpp

diff --git a/blastalign.hpp b/blastalign.hpp
index 0f755d852cb0fdb793c40e88613dd8b19076c991..94bce82936a5e05404ee66e4eda6d5cad282f3b3 100644 (file)
--- a/blastalign.hpp
+++ b/blastalign.hpp
@@ -12,6 +12,7 @@
  */
  
 #include "mothur.h"
+#include "globaldata.hpp"
 
 class BlastAlignment : public Alignment {
 
@@ -19,16 +20,20 @@ public:
        BlastAlignment(float, float, float, float);
        ~BlastAlignment();
        void align(string, string);
+       void setMatrix(int){};
+       
 private:
 
        string candidateFileName;
        string templateFileName;
        string blastFileName;
+       string path;
 
        void setPairwiseSeqs();
        float match;
        float mismatch;
        float gapOpen;
        float gapExtend;
+       GlobalData* globaldata;
 };