sharedfile = m->getSharedFile();
if (sharedfile != "") { m->mothurOut("Using " + sharedfile + " as input file for the shared parameter."); m->mothurOutEndLine(); }
else { m->mothurOut("You have no current sharedfile and the shared parameter is required."); m->mothurOutEndLine(); abort = true; }
- }
+ }else { m->setSharedFile(sharedfile); }
//if the user changes the output directory command factory will send this info to us in the output parameter
outputFileHandle << '\t';
sumCalculators[i]->print(outputFileHandle);
- seqDist temp(l, k, (1.0 - tempdata[0]));
+ seqDist temp(l, k, tempdata[0]);
calcDists[i].push_back(temp);
}
outputFileHandle << endl;