//**********************************************************************************************************************
vector<string> GetCurrentCommand::setParameters(){
try {
- CommandParameter pclear("clear", "String", "", "", "", "", "",false,false); parameters.push_back(pclear);
- CommandParameter pinputdir("inputdir", "String", "", "", "", "", "",false,false); parameters.push_back(pinputdir);
- CommandParameter poutputdir("outputdir", "String", "", "", "", "", "",false,false); parameters.push_back(poutputdir);
+ CommandParameter pclear("clear", "String", "", "", "", "", "","",false,false); parameters.push_back(pclear);
+ 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); }
m->setFlowFile("");
}else if (types[i] == "biom") {
m->setBiomFile("");
- }else if (types[i] == "counttable") {
+ }else if (types[i] == "count") {
m->setCountTableFile("");
+ }else if (types[i] == "summary") {
+ m->setSummaryFile("");
}else if (types[i] == "processors") {
m->setProcessors("1");
}else if (types[i] == "all") {