sumCalculators.push_back(new SharedChao1());
}else if (globaldata->Estimators[i] == "sharedace") {
sumCalculators.push_back(new SharedAce());
- }else if (globaldata->Estimators[i] == "sharedjabund") {
- sumCalculators.push_back(new SharedJAbund());
- }else if (globaldata->Estimators[i] == "sharedsorensonabund") {
- sumCalculators.push_back(new SharedSorAbund());
- }else if (globaldata->Estimators[i] == "sharedjclass") {
- sumCalculators.push_back(new SharedJclass());
- }else if (globaldata->Estimators[i] == "sharedsorclass") {
- sumCalculators.push_back(new SharedSorClass());
- }else if (globaldata->Estimators[i] == "sharedjest") {
- sumCalculators.push_back(new SharedJest());
- }else if (globaldata->Estimators[i] == "sharedsorest") {
- sumCalculators.push_back(new SharedSorEst());
- }else if (globaldata->Estimators[i] == "sharedthetayc") {
- sumCalculators.push_back(new SharedThetaYC());
- }else if (globaldata->Estimators[i] == "sharedthetan") {
- sumCalculators.push_back(new SharedThetaN());
- }else if (globaldata->Estimators[i] == "sharedkstest") {
- sumCalculators.push_back(new SharedKSTest());
+ }else if (globaldata->Estimators[i] == "jabund") {
+ sumCalculators.push_back(new JAbund());
+ }else if (globaldata->Estimators[i] == "sorensonabund") {
+ sumCalculators.push_back(new SorAbund());
+ }else if (globaldata->Estimators[i] == "jclass") {
+ sumCalculators.push_back(new Jclass());
+ }else if (globaldata->Estimators[i] == "sorclass") {
+ sumCalculators.push_back(new SorClass());
+ }else if (globaldata->Estimators[i] == "jest") {
+ sumCalculators.push_back(new Jest());
+ }else if (globaldata->Estimators[i] == "sorest") {
+ sumCalculators.push_back(new SorEst());
+ }else if (globaldata->Estimators[i] == "thetayc") {
+ sumCalculators.push_back(new ThetaYC());
+ }else if (globaldata->Estimators[i] == "thetan") {
+ sumCalculators.push_back(new ThetaN());
+ }else if (globaldata->Estimators[i] == "kstest") {
+ sumCalculators.push_back(new KSTest());
}else if (globaldata->Estimators[i] == "sharednseqs") {
sumCalculators.push_back(new SharedNSeqs());
- }else if (globaldata->Estimators[i] == "sharedochiai") {
- sumCalculators.push_back(new SharedOchiai());
- }else if (globaldata->Estimators[i] == "sharedanderberg") {
- sumCalculators.push_back(new SharedAnderberg());
- }else if (globaldata->Estimators[i] == "sharedkulczynski") {
- sumCalculators.push_back(new SharedKulczynski());
- }else if (globaldata->Estimators[i] == "sharedkulczynskicody") {
- sumCalculators.push_back(new SharedKulczynskiCody());
- }else if (globaldata->Estimators[i] == "sharedlennon") {
- sumCalculators.push_back(new SharedLennon());
- }else if (globaldata->Estimators[i] == "sharedmorisitahorn") {
- sumCalculators.push_back(new SharedMorHorn());
- }else if (globaldata->Estimators[i] == "sharedbraycurtis") {
- sumCalculators.push_back(new SharedBrayCurtis());
+ }else if (globaldata->Estimators[i] == "ochiai") {
+ sumCalculators.push_back(new Ochiai());
+ }else if (globaldata->Estimators[i] == "anderberg") {
+ sumCalculators.push_back(new Anderberg());
+ }else if (globaldata->Estimators[i] == "kulczynski") {
+ sumCalculators.push_back(new Kulczynski());
+ }else if (globaldata->Estimators[i] == "kulczynskicody") {
+ sumCalculators.push_back(new KulczynskiCody());
+ }else if (globaldata->Estimators[i] == "lennon") {
+ sumCalculators.push_back(new Lennon());
+ }else if (globaldata->Estimators[i] == "morisitahorn") {
+ sumCalculators.push_back(new MorHorn());
+ }else if (globaldata->Estimators[i] == "braycurtis") {
+ sumCalculators.push_back(new BrayCurtis());
}
- else if (globaldata->Estimators[i] == "sharedbdiversity") {
- sumCalculators.push_back(new SharedBDiversity());
+ else if (globaldata->Estimators[i] == "bdiversity") {
+ sumCalculators.push_back(new BDiversity());
}
}
if (sumCalculators.size() == 0) { return 0; }
if (format == "sharedfile") {
- read = new ReadPhilFile(globaldata->inputFileName);
+ read = new ReadOTUFile(globaldata->inputFileName);
read->read(&*globaldata);
input = globaldata->ginput;
order = input->getSharedOrderVector();
}else {
//you are using a list and a groupfile
- read = new ReadPhilFile(globaldata->inputFileName);
+ read = new ReadOTUFile(globaldata->inputFileName);
read->read(&*globaldata);
input = globaldata->ginput;