major change to the tree class to use the count table class instead of tree map....

[mothur.git] / deconvolutecommand.h

diff --git a/deconvolutecommand.h b/deconvolutecommand.h
index 7d4cb50023eb6312b652a8368d2d862882b3ffd4..673ffc9e4d2e689cd32c6b16867089fe43f216d1 100644 (file)
--- a/deconvolutecommand.h
+++ b/deconvolutecommand.h
@@ -11,6 +11,7 @@
 
 #include "command.hpp"
 #include "fastamap.h"
+#include "counttable.h"
 
 /* The unique.seqs command reads a fasta file, finds the duplicate sequences and outputs a names file
        containing 2 columns.  The first being the groupname and the second the list of identical sequence names. */ 
@@ -37,7 +38,7 @@ public:
        
        
 private:
-       string inFastaName, oldNameMapFName, outputDir;
+       string inFastaName, oldNameMapFName, outputDir, countfile;
        vector<string> outputNames;
 
        bool abort;