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
 125
 126                         if (input[0] != '#') {
 127
 128                                 mothurOutEndLine();
 129                                 mothurOut("mothur > " + input);
 130                                 mothurOutEndLine();
 131
 132
 133                                 //allow user to omit the () on the quit command
 134                                 if (input == "quit") { input = "quit()"; }
 135
 136                                 CommandOptionParser parser(input);
 137                                 commandName = parser.getCommandString();
 138                                 options = parser.getOptionString();
 139
 140                                 if (commandName != "") {
 141
 142                                         //executes valid command
 143                                         CommandFactory cFactory;
 144                                         Command* command = cFactory.getCommand(commandName, options);
 145                                         quitCommandCalled = command->execute();
 146                                 }else {
 147                                         mothurOut("Invalid.");
 148                                         mothurOutEndLine();
 149                                 }
 150
 151                         }
 152                         gobble(inputBatchFile);
 153                 }
 154
 155                 inputBatchFile.close();
 156                 return 1;
 157         }
 158         catch(exception& e) {
 159                 errorOut(e, "BatchEngine", "getInput");
 160                 exit(1);
 161         }
 162 }
 163
 164
 165 /***********************************************************************/
 166 /***********************************************************************/
 167 //This function opens the batchfile to be used by BatchEngine::getInput.
 168 ScriptEngine::ScriptEngine(string path, string commandString){
 169         try {
 170                 globaldata = GlobalData::getInstance();
 171
 172                 //remove quotes
 173                 listOfCommands = commandString.substr(1, (commandString.length()-1));
 174
 175                 globaldata->argv = path;
 176
 177
 178
 179         }
 180         catch(exception& e) {
 181                 errorOut(e, "ScriptEngine", "ScriptEngine");
 182                 exit(1);
 183         }
 184 }
 185
 186 /***********************************************************************/
 187
 188 ScriptEngine::~ScriptEngine(){
 189         }
 190
 191 /***********************************************************************/
 192 //This Function allows the user to run a batchfile containing several commands on mothur
 193 bool ScriptEngine::getInput(){
 194         try {
 195
 196                 string input = "";
 197                 string commandName = "";
 198                 string options = "";
 199
 200
 201                 //CommandFactory cFactory;
 202                 int quitCommandCalled = 0;
 203
 204                 while(quitCommandCalled == 0){
 205
 206                         input = getNextCommand(listOfCommands);
 207
 208                         if (input == "") { input = "quit()"; }
 209
 210
 211                         mothurOutEndLine();
 212                         mothurOut("mothur > " + input);
 213                         mothurOutEndLine();
 214
 215
 216                         //allow user to omit the () on the quit command
 217                         if (input == "quit") { input = "quit()"; }
 218
 219                         CommandOptionParser parser(input);
 220                         commandName = parser.getCommandString();
 221                         options = parser.getOptionString();
 222
 223                         if (commandName != "") {
 224
 225                                 //executes valid command
 226                                 CommandFactory cFactory;
 227                                 Command* command = cFactory.getCommand(commandName, options);
 228                                 quitCommandCalled = command->execute();
 229                         }else {
 230                                 mothurOut("Invalid.");
 231                                 mothurOutEndLine();
 232                         }
 233
 234                 }
 235
 236                 return 1;
 237         }
 238         catch(exception& e) {
 239                 errorOut(e, "ScriptEngine", "getInput");
 240                 exit(1);
 241         }
 242 }
 243 /***********************************************************************/
 244 string ScriptEngine::getNextCommand(string& commandString) {
 245         try {
 246                 string nextcommand = "";
 247                 int count = 0;
 248
 249                 //go through string until you reach ; or end
 250                 while (count < commandString.length()) {
 251
 252                         if (commandString[count] == ';') {  break;   }
 253                         else {          nextcommand += commandString[count];    }
 254
 255                         count++;
 256                 }
 257
 258                 //if you are not at the end
 259                 if (count != commandString.length())  {   commandString = commandString.substr(count+1, commandString.length());  }
 260                 else { commandString = ""; }
 261
 262
 263                 //get rid of spaces in between commands if any
 264                 if (commandString.length() > 0) {
 265                         while (commandString[0] == ' ') {
 266                                 commandString = commandString.substr(1,commandString.length());
 267                                 if (commandString.length() == 0) {  break;  }
 268                         }
 269                 }
 270
 271                 return nextcommand;
 272         }
 273         catch(exception& e) {
 274                 errorOut(e, "ScriptEngine", "getNextCommand");
 275                 exit(1);
 276         }
 277 }
 278 /***********************************************************************/