string fastaFileName, templateFileName, countfile, distanceFileName, namefile, search, method, taxonomyFileName, outputDir, groupfile;
int processors, kmerSize, numWanted, cutoff, iters;
float match, misMatch, gapOpen, gapExtend;
- bool abort, probs, save, flip, hasName, hasCount, writeShortcuts;
+ bool abort, probs, save, flip, hasName, hasCount, writeShortcuts, relabund;
int driver(linePair*, string, string, string, string);
int createProcesses(string, string, string, string);