7 #include "rabundvector.hpp"
8 #include "sabundvector.hpp"
9 #include "listvector.hpp"
11 #include "sparsematrix.hpp"
12 #include "sequencedb.h"
16 class SharedListVector;
30 static GlobalData* getInstance();
31 ListVector* gListVector;
32 SparseMatrix* gSparseMatrix;
37 SharedListVector* gSharedList;
43 SequenceDB* gSequenceDB;
44 string inputFileName, argv;
45 bool allLines, runParse, jumble;
46 vector<string> Estimators, Groups; //holds estimators to be used
47 set<int> lines; //hold lines to be used
48 set<string> labels; //holds labels to be used
49 vector<string> Treenames;
52 string getPhylipFile();
53 string getColumnFile();
55 string getRabundFile();
56 string getSabundFile();
57 string getNameFile(); //do we need this?
58 string getGroupFile(); //do we need this?
59 string getOrderFile();
61 string getSharedFile();
62 string getFormat(); //do we need this?
65 void setListFile(string);
66 void setTreeFile(string);
67 void setGroupFile(string); //do we need this?
68 void setPhylipFile(string);
69 void setColumnFile(string);
70 void setNameFile(string); //do we need this?
71 void setRabundFile(string);
72 void setSabundFile(string);
73 void setSharedFile(string);
74 void setOrderFile(string file);
75 void setFormat(string); //do we need this?
85 string phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, orderfile, treefile, sharedfile, format;
87 static GlobalData* _uniqueInstance;
88 GlobalData( const GlobalData& ); // Disable copy constructor
89 void operator=( const GlobalData& ); // Disable assignment operator