+vector<string> MergeFileCommand::setParameters(){
+ try {
+ CommandParameter pinput("input", "String", "", "", "", "", "",false,true); parameters.push_back(pinput);
+ CommandParameter poutput("output", "String", "", "", "", "", "",false,true); parameters.push_back(poutput);
+ CommandParameter pinputdir("inputdir", "String", "", "", "", "", "",false,false); parameters.push_back(pinputdir);
+ CommandParameter poutputdir("outputdir", "String", "", "", "", "", "",false,false); parameters.push_back(poutputdir);
+
+ vector<string> myArray;
+ for (int i = 0; i < parameters.size(); i++) { myArray.push_back(parameters[i].name); }
+ return myArray;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "MergeFileCommand", "setParameters");
+ exit(1);
+ }
+}
+//**********************************************************************************************************************
+string MergeFileCommand::getHelpString(){
+ try {
+ string helpString = "";
+ helpString += "The merge.file command takes a list of files separated by dashes and merges them into one file.";
+ helpString += "The merge.file command parameters are input and output.";
+ helpString += "Example merge.file(input=small.fasta-large.fasta, output=all.fasta).";
+ helpString += "Note: No spaces between parameter labels (i.e. output), '=' and parameters (i.e.yourOutputFileName).\n";
+ return helpString;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "MergeFileCommand", "getHelpString");
+ exit(1);
+ }
+}