added more descriptive error messages to sharedlist

[mothur.git] / readotucommand.h

diff --git a/readotucommand.h b/readotucommand.h
index 586e6ef36e5ca3ab015db96b493c191612a9330a..6ec35412c3c82206bef933787c820ca36e2158d2 100644 (file)
--- a/readotucommand.h
+++ b/readotucommand.h
@@ -14,7 +14,6 @@
 #include "inputdata.h"
 #include "groupmap.h"
 #include "sharedcommand.h"
-#include "parselistcommand.h"
 
 /* The read.otu must be run before you execute a collect.single, rarefaction.single, summary.single, 
 collect.shared, rarefaction.shared or summary.shared command. Mothur will generate a .list, .rabund and .sabund 
@@ -40,15 +39,12 @@ public:
        
 private:
        GlobalData* globaldata;
-       ReadOTUFile* read;
+       //ReadOTUFile* read;
        InputData* input;
        Command* shared;
-       Command* parselist;
        GroupMap* groupMap;
        string filename, listfile, orderfile, sharedfile, line, label, groupfile, sabundfile, rabundfile, format;
-       OptionParser* parser;
-       map<string, string> parameters;
-       map<string, string>::iterator it;
+
        bool abort, allLines;
        set<int> lines; //hold lines to be used
        set<string> labels; //holds labels to be used