globaldata.cpp

   1
   2
   3 #include "globaldata.hpp"
   4 #include "sharedlistvector.h"
   5 #include "inputdata.h"
   6 #include "fullmatrix.h"
   7
   8 /*******************************************************/
   9
  10 /******************************************************/
  11 GlobalData* GlobalData::getInstance() {
  12         if( _uniqueInstance == 0) {
  13                 _uniqueInstance = new GlobalData();
  14         }
  15         return _uniqueInstance;
  16 }
  17 /*******************************************************/
  18
  19 /******************************************************/
  20 // These functions give you the option parameters of the commands
  21 string GlobalData::getPhylipFile()              {       return phylipfile;              }
  22 string GlobalData::getColumnFile()              {       return columnfile;              }
  23 string GlobalData::getListFile()                {       return listfile;                }
  24 string GlobalData::getRabundFile()              {       return rabundfile;              }
  25 string GlobalData::getSabundFile()              {       return sabundfile;              }
  26 string GlobalData::getNameFile()                {       return namefile;                }
  27 string GlobalData::getGroupFile()               {       return groupfile;               }
  28 string GlobalData::getOrderFile()               {       return orderfile;               }
  29 string GlobalData::getTreeFile()                {       return treefile;                }
  30 string GlobalData::getSharedFile()              {       return sharedfile;              }
  31 string GlobalData::getFormat()                  {       return format;                  }
  32
  33 void GlobalData::setListFile(string file)               {       listfile = file;        inputFileName = file;                                   }
  34 void GlobalData::setTreeFile(string file)               {       treefile = file;        inputFileName = file;                                   }
  35 void GlobalData::setRabundFile(string file)             {       rabundfile = file;      inputFileName = file;                                   }
  36 void GlobalData::setSabundFile(string file)             {       sabundfile = file;      inputFileName = file;                                   }
  37 void GlobalData::setPhylipFile(string file)             {       phylipfile = file;    inputFileName = file;                                     }
  38 void GlobalData::setColumnFile(string file)             {       columnfile = file;    inputFileName = file;                                     }
  39 void GlobalData::setGroupFile(string file)              {       groupfile = file;                                                                                       }
  40 void GlobalData::setSharedFile(string file)             {       sharedfile = file;      inputFileName = file;                                   }
  41 void GlobalData::setNameFile(string file)               {       namefile = file;                }
  42 void GlobalData::setOrderFile(string file)              {       orderfile = file;               }
  43 void GlobalData::setFormat(string Format)               {       format = Format;                }
  44
  45
  46 /*******************************************************/
  47
  48 /******************************************************/
  49 GlobalData::GlobalData() {
  50         //option definitions should go here...
  51         clear();
  52         gListVector = NULL;
  53         gSparseMatrix = NULL;
  54         ginput = NULL;
  55         gorder = NULL;
  56         glist = NULL;
  57         gSharedList = NULL;
  58         sabund = NULL;
  59         rabund = NULL;
  60         gGroupmap = NULL;
  61         gMatrix = NULL;
  62         gTreemap = NULL;
  63         gSequenceDB = NULL;
  64         nameMap = NULL;
  65 }
  66 /*******************************************************/
  67
  68 /******************************************************/
  69 void GlobalData::clear() {
  70         //option definitions should go here...
  71         phylipfile              =       ""; //do we need this?
  72         columnfile              =       ""; //do we need this?
  73         listfile                =       "";
  74         rabundfile              =       "";
  75         sabundfile              =       "";
  76         namefile                =       ""; //do we need this?
  77         groupfile               =       ""; //do we need this?
  78         orderfile               =       "";
  79 //      fastafile               =   ""; //do we need this?
  80         treefile                =       "";
  81         sharedfile              =       "";
  82 }
  83
  84
  85 /*******************************************************/
  86
  87 /******************************************************/
  88 void GlobalData::newRead() {
  89         try{
  90                         //remove old file names
  91                         clear();
  92
  93                         //free memory
  94                         if (gGroupmap != NULL) { delete gGroupmap; gGroupmap = NULL; }
  95
  96                         if (gListVector != NULL) { delete gListVector; gListVector = NULL;}
  97
  98                         if (gSparseMatrix != NULL) { delete gSparseMatrix; gSparseMatrix = NULL; }
  99
 100                         if (ginput != NULL) { delete ginput; ginput = NULL;}
 101
 102                         if (gorder != NULL) { delete gorder; gorder = NULL; }
 103
 104                         if (glist != NULL) { delete glist; glist = NULL;}
 105
 106                         if (gSharedList != NULL) { delete gSharedList; gSharedList = NULL; }
 107
 108                         if (sabund != NULL) { delete sabund; sabund = NULL;}
 109
 110                         if (rabund != NULL) { delete rabund; rabund = NULL; }
 111
 112                         if (gMatrix != NULL) { delete gMatrix; gMatrix = NULL;}
 113
 114                         if (gTreemap != NULL) { delete gTreemap; gTreemap = NULL; }
 115
 116                         if (gSequenceDB != NULL) { delete gSequenceDB; gSequenceDB = NULL;}
 117
 118                         if (nameMap != NULL) { delete nameMap; nameMap = NULL; }
 119
 120
 121                         gTree.clear();
 122                         Treenames.clear();
 123                         labels.clear(); Groups.clear();
 124                         allLines = 1;
 125                         runParse = true;
 126         }
 127         catch(exception& e) {
 128                 errorOut(e, "GlobalData", "newRead");
 129                 exit(1);
 130         }
 131 }
 132
 133 //******************************************************/
 134
 135 /******************************************************/
 136 GlobalData::~GlobalData() {
 137         _uniqueInstance = 0;
 138         try {
 139                 if (gGroupmap != NULL) { delete gGroupmap; gGroupmap = NULL; }
 140                 if (gListVector != NULL) { delete gListVector; gListVector = NULL;}
 141                 if (gSparseMatrix != NULL) { delete gSparseMatrix; gSparseMatrix = NULL; }
 142                 if (ginput != NULL) { delete ginput; ginput = NULL;}
 143                 if (gorder != NULL) { delete gorder; gorder = NULL; }
 144                 if (glist != NULL) { delete glist; glist = NULL;}
 145                 if (gSharedList != NULL) { delete gSharedList; gSharedList = NULL; }
 146                 if (sabund != NULL) { delete sabund; sabund = NULL;}
 147                 if (rabund != NULL) { delete rabund; rabund = NULL; }
 148                 if (gMatrix != NULL) { delete gMatrix; gMatrix = NULL;}
 149                 if (gTreemap != NULL) { delete gTreemap; gTreemap = NULL; }
 150                 if (gSequenceDB != NULL) { delete gSequenceDB; gSequenceDB = NULL;}
 151                 if (nameMap != NULL) { delete nameMap; nameMap = NULL; }
 152         }
 153         catch(exception& e) {
 154                 errorOut(e, "GlobalData", "~GlobalData");
 155                 exit(1);
 156         }
 157 }
 158 /*******************************************************/
 159
 160 /*******************************************************/
 161
 162