engine.cpp

   1 /*
   2  *  engine.cpp
   3  *
   4  *
   5  *  Created by Pat Schloss on 8/15/08.
   6  *  Copyright 2008 Patrick D. Schloss. All rights reserved.
   7  *
   8  *  There's a TON of duplicated code between InteractEngine and BatchEngine
   9  *  I couldn't figure out how to transition between ifstream (batch) and cin (interact)
  10  *  Fix later, don't have time now.
  11  *
  12  */
  13
  14
  15 #include "engine.hpp"
  16
  17 /***********************************************************************/
  18
  19 InteractEngine::InteractEngine(string path){
  20
  21         globaldata = GlobalData::getInstance();
  22         globaldata->argv = path;
  23
  24
  25 }
  26
  27 /***********************************************************************/
  28
  29 InteractEngine::~InteractEngine(){
  30         }
  31
  32 /***********************************************************************/
  33 //This function allows the user to input commands one line at a time until they quit.
  34 //If the command is garbage it does nothing.
  35 bool InteractEngine::getInput(){
  36         try {
  37                 string input = "";
  38                 string commandName = "";
  39                 string options = "";
  40                 int quitCommandCalled = 0;
  41
  42
  43                 while(quitCommandCalled != 1){
  44
  45                         mothurOutEndLine();
  46                         mothurOut("mothur > ");
  47                         getline(cin, input);
  48                         if (cin.eof()) { input = "quit()"; }
  49
  50                         mothurOutJustToLog(input);
  51                         mothurOutEndLine();
  52
  53                         //allow user to omit the () on the quit command
  54                         if (input == "quit") { input = "quit()"; }
  55
  56                         CommandOptionParser parser(input);
  57                         commandName = parser.getCommandString();
  58                         options = parser.getOptionString();
  59
  60                         if (commandName != "") {
  61
  62                                 //executes valid command
  63                                 CommandFactory cFactory;
  64                                 Command* command = cFactory.getCommand(commandName, options);
  65                                 quitCommandCalled = command->execute();
  66
  67                         }else {
  68                                 mothurOut("Your input contains errors. Please try again.");
  69                                 mothurOutEndLine();
  70                         }
  71                 }
  72                 return 1;
  73         }
  74         catch(exception& e) {
  75                 errorOut(e, "InteractEngine", "getInput");
  76                 exit(1);
  77         }
  78 }
  79
  80 /***********************************************************************/
  81 //This function opens the batchfile to be used by BatchEngine::getInput.
  82 BatchEngine::BatchEngine(string path, string batchFileName){
  83         try {
  84                 globaldata = GlobalData::getInstance();
  85
  86                 openedBatch = openInputFile(batchFileName, inputBatchFile);
  87                 globaldata->argv = path;
  88
  89         }
  90         catch(exception& e) {
  91                 errorOut(e, "BatchEngine", "BatchEngine");
  92                 exit(1);
  93         }
  94 }
  95
  96 /***********************************************************************/
  97
  98 BatchEngine::~BatchEngine(){
  99         }
 100
 101 /***********************************************************************/
 102 //This Function allows the user to run a batchfile containing several commands on Dotur
 103 bool BatchEngine::getInput(){
 104         try {
 105                 //check if this is a valid batchfile
 106                 if (openedBatch == 1) {
 107                         mothurOut("unable to open batchfile");
 108                         mothurOutEndLine();
 109                         return 1;
 110                 }
 111
 112                 string input = "";
 113                 string commandName = "";
 114                 string options = "";
 115
 116                 //CommandFactory cFactory;
 117                 int quitCommandCalled = 0;
 118
 119                 while(quitCommandCalled == 0){
 120
 121                         if (inputBatchFile.eof()) { input = "quit()"; }
 122                         else { input = getline(inputBatchFile); }
 123
 124                         if (input[0] != '#') {
 125
 126                                 mothurOutEndLine();
 127                                 mothurOut("mothur > " + input);
 128                                 mothurOutEndLine();
 129
 130
 131                                 //allow user to omit the () on the quit command
 132                                 if (input == "quit") { input = "quit()"; }
 133
 134                                 CommandOptionParser parser(input);
 135                                 commandName = parser.getCommandString();
 136                                 options = parser.getOptionString();
 137
 138                                 if (commandName != "") {
 139
 140                                         //executes valid command
 141                                         CommandFactory cFactory;
 142                                         Command* command = cFactory.getCommand(commandName, options);
 143                                         quitCommandCalled = command->execute();
 144                                 }else {
 145                                         mothurOut("Invalid.");
 146                                         mothurOutEndLine();
 147                                 }
 148
 149                         }
 150                         gobble(inputBatchFile);
 151                 }
 152
 153                 inputBatchFile.close();
 154                 return 1;
 155         }
 156         catch(exception& e) {
 157                 errorOut(e, "BatchEngine", "getInput");
 158                 exit(1);
 159         }
 160 }
 161
 162
 163 /***********************************************************************/
 164 /***********************************************************************/
 165 //This function opens the batchfile to be used by BatchEngine::getInput.
 166 ScriptEngine::ScriptEngine(string path, string commandString){
 167         try {
 168                 globaldata = GlobalData::getInstance();
 169
 170                 //remove quotes
 171                 listOfCommands = commandString.substr(1, (commandString.length()-1));
 172
 173                 globaldata->argv = path;
 174
 175
 176
 177         }
 178         catch(exception& e) {
 179                 errorOut(e, "ScriptEngine", "ScriptEngine");
 180                 exit(1);
 181         }
 182 }
 183
 184 /***********************************************************************/
 185
 186 ScriptEngine::~ScriptEngine(){
 187         }
 188
 189 /***********************************************************************/
 190 //This Function allows the user to run a batchfile containing several commands on mothur
 191 bool ScriptEngine::getInput(){
 192         try {
 193
 194                 string input = "";
 195                 string commandName = "";
 196                 string options = "";
 197
 198
 199                 //CommandFactory cFactory;
 200                 int quitCommandCalled = 0;
 201
 202                 while(quitCommandCalled == 0){
 203
 204                         input = getNextCommand(listOfCommands);
 205
 206                         if (input == "") { input = "quit()"; }
 207
 208
 209                         mothurOutEndLine();
 210                         mothurOut("mothur > " + input);
 211                         mothurOutEndLine();
 212
 213
 214                         //allow user to omit the () on the quit command
 215                         if (input == "quit") { input = "quit()"; }
 216
 217                         CommandOptionParser parser(input);
 218                         commandName = parser.getCommandString();
 219                         options = parser.getOptionString();
 220
 221                         if (commandName != "") {
 222
 223                                 //executes valid command
 224                                 CommandFactory cFactory;
 225                                 Command* command = cFactory.getCommand(commandName, options);
 226                                 quitCommandCalled = command->execute();
 227                         }else {
 228                                 mothurOut("Invalid.");
 229                                 mothurOutEndLine();
 230                         }
 231
 232                 }
 233
 234                 return 1;
 235         }
 236         catch(exception& e) {
 237                 errorOut(e, "ScriptEngine", "getInput");
 238                 exit(1);
 239         }
 240 }
 241 /***********************************************************************/
 242 string ScriptEngine::getNextCommand(string& commandString) {
 243         try {
 244                 string nextcommand = "";
 245                 int count = 0;
 246
 247                 //go through string until you reach ; or end
 248                 while (count < commandString.length()) {
 249
 250                         if (commandString[count] == ';') {  break;   }
 251                         else {          nextcommand += commandString[count];    }
 252
 253                         count++;
 254                 }
 255
 256                 //if you are not at the end
 257                 if (count != commandString.length())  {   commandString = commandString.substr(count+1, commandString.length());  }
 258                 else { commandString = ""; }
 259
 260
 261                 //get rid of spaces in between commands if any
 262                 if (commandString.length() > 0) {
 263                         while (commandString[0] == ' ') {
 264                                 commandString = commandString.substr(1,commandString.length());
 265                                 if (commandString.length() == 0) {  break;  }
 266                         }
 267                 }
 268
 269                 return nextcommand;
 270         }
 271         catch(exception& e) {
 272                 errorOut(e, "ScriptEngine", "getNextCommand");
 273                 exit(1);
 274         }
 275 }
 276 /***********************************************************************/