#include "engine.hpp"
+/***********************************************************************/
+Engine::Engine(){
+ try {
+ cFactory = CommandFactory::getInstance();
+ mout = MothurOut::getInstance();
+ }
+ catch(exception& e) {
+ mout->errorOut(e, "Engine", "Engine");
+ exit(1);
+ }
+}
/***********************************************************************/
globaldata = GlobalData::getInstance();
globaldata->argv = path;
+
}
/***********************************************************************/
int quitCommandCalled = 0;
while(quitCommandCalled != 1){
+
+ mout->mothurOutEndLine();
- mothurOutEndLine();
-
- input = getCommand();
+ input = getCommand();
+ mout->mothurOutEndLine();
- mothurOutJustToLog("mothur > " + input);
- mothurOutEndLine();
+ if (mout->control_pressed) { input = "quit()"; }
//allow user to omit the () on the quit command
if (input == "quit") { input = "quit()"; }
options = parser.getOptionString();
if (commandName != "") {
-
+ mout->executing = true;
+
+ #ifdef USE_MPI
+ int pid;
+ MPI_Comm_rank(MPI_COMM_WORLD, &pid);
+
+ if ((cFactory->MPIEnabled(commandName)) || (pid == 0)) {
+ #endif
//executes valid command
Command* command = cFactory->getCommand(commandName, options);
quitCommandCalled = command->execute();
+ mout->control_pressed = 0;
+ mout->executing = false;
+ #ifdef USE_MPI
+ }
+ #endif
}else {
- mothurOut("Your input contains errors. Please try again.");
- mothurOutEndLine();
+ mout->mothurOut("Your input contains errors. Please try again.");
+ mout->mothurOutEndLine();
}
}
return 1;
}
catch(exception& e) {
- errorOut(e, "InteractEngine", "getInput");
+ mout->errorOut(e, "InteractEngine", "getInput");
exit(1);
}
}
/***********************************************************************/
string Engine::getCommand() {
try {
- char* nextCommand = NULL;
-
- nextCommand = readline("mothur > ");
- if(nextCommand != NULL) { add_history(nextCommand); }
+ #if defined (__APPLE__) || (__MACH__) || (linux) || (__linux)
+ #ifdef USE_READLINE
+ char* nextCommand = NULL;
+ nextCommand = readline("mothur > ");
+
+ if(nextCommand != NULL) { add_history(nextCommand); }
+ else{ //^D causes null string and we want it to quit mothur
+ nextCommand = "quit";
+ mout->mothurOut(nextCommand);
+ }
+
+ mout->mothurOutJustToLog("mothur > " + toString(nextCommand));
+ return nextCommand;
+ #else
+ string nextCommand = "";
+ mout->mothurOut("mothur > ");
+ getline(cin, nextCommand);
+ mout->mothurOutJustToLog("mothur > " + toString(nextCommand));
+
+ return nextCommand;
+ #endif
+ #else
+ string nextCommand = "";
+
+ mout->mothurOut("mothur > ");
+ getline(cin, nextCommand);
+ mout->mothurOutJustToLog(toString(nextCommand));
+
+ return nextCommand;
+ #endif
+
- return nextCommand;
}
catch(exception& e) {
- errorOut(e, "Engine", "getCommand");
- exit(1);
- }
-}
-/***********************************************************************/
-void Engine::terminateCommand(int dummy) {
- try {
- mothurOut("Stopping command."); mothurOutEndLine();
- cFactory->getCommand(); //terminates command
- }
- catch(exception& e) {
- errorOut(e, "Engine", "terminateCommand");
+ mout->errorOut(e, "Engine", "getCommand");
exit(1);
}
}
}
catch(exception& e) {
- errorOut(e, "BatchEngine", "BatchEngine");
+ mout->errorOut(e, "BatchEngine", "BatchEngine");
exit(1);
}
}
try {
//check if this is a valid batchfile
if (openedBatch == 1) {
- mothurOut("unable to open batchfile");
- mothurOutEndLine();
+ mout->mothurOut("unable to open batchfile");
+ mout->mothurOutEndLine();
return 1;
}
if (input[0] != '#') {
- mothurOutEndLine();
- mothurOut("mothur > " + input);
- mothurOutEndLine();
-
+ mout->mothurOutEndLine();
+ mout->mothurOut("mothur > " + input);
+ mout->mothurOutEndLine();
+
+ if (mout->control_pressed) { input = "quit()"; }
//allow user to omit the () on the quit command
if (input == "quit") { input = "quit()"; }
options = parser.getOptionString();
if (commandName != "") {
-
+ mout->executing = true;
+ #ifdef USE_MPI
+ int pid;
+ MPI_Comm_rank(MPI_COMM_WORLD, &pid);
+
+ if ((cFactory->MPIEnabled(commandName)) || (pid == 0)) {
+ #endif
//executes valid command
Command* command = cFactory->getCommand(commandName, options);
quitCommandCalled = command->execute();
+ mout->control_pressed = 0;
+ mout->executing = false;
+
+ #ifdef USE_MPI
+ }
+ #endif
}else {
- mothurOut("Invalid.");
- mothurOutEndLine();
+ mout->mothurOut("Invalid.");
+ mout->mothurOutEndLine();
}
}
return 1;
}
catch(exception& e) {
- errorOut(e, "BatchEngine", "getInput");
+ mout->errorOut(e, "BatchEngine", "getInput");
exit(1);
}
}
listOfCommands = commandString.substr(1, (commandString.length()-1));
globaldata->argv = path;
-
+
}
catch(exception& e) {
- errorOut(e, "ScriptEngine", "ScriptEngine");
+ mout->errorOut(e, "ScriptEngine", "ScriptEngine");
exit(1);
}
}
if (input == "") { input = "quit()"; }
+ mout->mothurOutEndLine();
+ mout->mothurOut("mothur > " + input);
+ mout->mothurOutEndLine();
- mothurOutEndLine();
- mothurOut("mothur > " + input);
- mothurOutEndLine();
-
+ if (mout->control_pressed) { input = "quit()"; }
//allow user to omit the () on the quit command
if (input == "quit") { input = "quit()"; }
options = parser.getOptionString();
if (commandName != "") {
-
+ mout->executing = true;
+ #ifdef USE_MPI
+ int pid;
+ MPI_Comm_rank(MPI_COMM_WORLD, &pid);
+
+ if ((cFactory->MPIEnabled(commandName)) || (pid == 0)) {
+ #endif
//executes valid command
Command* command = cFactory->getCommand(commandName, options);
quitCommandCalled = command->execute();
+ mout->control_pressed = 0;
+ mout->executing = false;
+
+ #ifdef USE_MPI
+ }
+ #endif
}else {
- mothurOut("Invalid.");
- mothurOutEndLine();
+ mout->mothurOut("Invalid.");
+ mout->mothurOutEndLine();
}
}
return 1;
}
catch(exception& e) {
- errorOut(e, "ScriptEngine", "getInput");
+ mout->errorOut(e, "ScriptEngine", "getInput");
exit(1);
}
}
return nextcommand;
}
catch(exception& e) {
- errorOut(e, "ScriptEngine", "getNextCommand");
+ mout->errorOut(e, "ScriptEngine", "getNextCommand");
exit(1);
}
}