+//**********************************************************************************************************************
+vector<string> ParseFastaQCommand::getValidParameters(){
+ try {
+ string Array[] = {"fastq", "outputdir","inputdir"};
+ vector<string> myArray (Array, Array+(sizeof(Array)/sizeof(string)));
+ return myArray;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "ParseFastaQCommand", "getValidParameters");
+ exit(1);
+ }
+}
+//**********************************************************************************************************************
+ParseFastaQCommand::ParseFastaQCommand(){
+ try {
+ abort = true;
+ //initialize outputTypes
+ vector<string> tempOutNames;
+ outputTypes["fasta"] = tempOutNames;
+ outputTypes["qual"] = tempOutNames;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "ParseFastaQCommand", "ParseFastaQCommand");
+ exit(1);
+ }
+}
+//**********************************************************************************************************************
+vector<string> ParseFastaQCommand::getRequiredParameters(){
+ try {
+ string Array[] = {"fastq"};
+ vector<string> myArray (Array, Array+(sizeof(Array)/sizeof(string)));
+ return myArray;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "ParseFastaQCommand", "getRequiredParameters");
+ exit(1);
+ }
+}
+//**********************************************************************************************************************
+vector<string> ParseFastaQCommand::getRequiredFiles(){
+ try {
+ vector<string> myArray;
+ return myArray;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "ParseFastaQCommand", "getRequiredFiles");
+ exit(1);
+ }
+}