ifstream inTax;
openInputFile(tfile, inTax);
- int highestLevel = getHighestLevel(inTax);
+ highestLevel = getHighestLevel(inTax);
//if the user has specified a cutoff and it's smaller than the highest level
if ((cutoff != -1) && (cutoff < highestLevel)) {
//is this a taxonomy that needs to be extended?
if (seqLevels[name] < highestLevel) {
extendTaxonomy(name, tax, highestLevel);
- }else if (seqLevels[name] > highestLevel) { //this can happen if hte user enters a cutoff
+ }else if (seqLevels[name] > highestLevel) { //this can happen if the user enters a cutoff
truncateTaxonomy(name, tax, highestLevel);
}