TestOptiCluster::TestOptiCluster() { //setup m = MothurOut::getInstance(); TestDataSet data; filenames = data.getSubsetFNGFiles(100); //Fasta, name, group returned string inputString = "fasta=" + filenames[0]; m->mothurOut("/******************************************/"); m->mothurOutEndLine(); m->mothurOut("Running command: dist.seqs(" + inputString + ")"); m->mothurOutEndLine(); m->mothurCalling = true; Command* distCommand = new DistanceCommand(inputString); distCommand->execute(); map<string, vector<string> > outputFilenames = distCommand->getOutputFiles(); delete distCommand; m->mothurCalling = false; columnFile = outputFilenames["column"][0]; matrix = new OptiMatrix(columnFile, filenames[1], "name", "column", 0.03, false); setVariables(matrix, "mcc"); }
TestVsearchFileParser::TestVsearchFileParser() { //setup m = MothurOut::getInstance(); TestDataSet data; filenames = data.getSubsetFNGFiles(100); ct = data.getCountTable(); }
TestRenameFileCommand::TestRenameFileCommand() { //setup m = MothurOut::getInstance(); TestDataSet data; filenames = data.getSubsetFNGFiles(); }