1 #ifndef BOOTSTRAPSHAREDCOMMAND_H
2 #define BOOTSTRAPSHAREDCOMMAND_H
5 * bootstrapsharedcommand.h
8 * Created by Sarah Westcott on 4/16/09.
9 * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
13 #include "command.hpp"
14 #include "sharedordervector.h"
15 #include "sharedlistvector.h"
16 #include "inputdata.h"
19 #include "validcalculator.h"
22 #include "sharedutilities.h"
26 class BootSharedCommand : public Command {
34 void createTree(ostream*);
37 GlobalData* globaldata;
42 vector<Calculator*> treeCalculators;
43 vector<ofstream*> out;
44 vector< vector<float> > simMatrix;
45 map<int, int> index; //maps row in simMatrix to vector index in the tree
47 ValidCalculators* validCalculator;
48 SharedListVector* SharedList;
49 SharedOrderVector* order;
50 vector<SharedRAbundVector*> lookup;
51 string format, outputFile;