added distance command and filterseqs

[mothur.git] / distancecommand.h

diff --git a/distancecommand.h b/distancecommand.h
index a43e3955c9ec8184040653389b6a2f61ad2e94ba..34dd65e66ee0984d298e68ba0cc587343d191d5b 100644 (file)
--- a/distancecommand.h
+++ b/distancecommand.h
@@ -16,6 +16,10 @@
 #include "validcalculator.h"
 #include "dist.h"
 #include "sequencedb.h"
+#include "readfasta.h"
+#include "readnexus.h"
+#include "readclustal.h"
+#include "readseqsphylip.h"
 
 
 using namespace std;
@@ -32,12 +36,14 @@ private:
        ValidCalculators* validCalculator;
        Dist* distCalculator;
        SequenceDB* seqDB;
+       ReadSeqs* readSeqs;
        ofstream out;
        string outputFileName;
-       string ends, distFile;
+       string ends;
        int processors;
        float cutoff;
        
+       void appendFiles(string, string);
        int driver(Dist*, SequenceDB*, int, int, string, float);
 
 };