added binary file operations to mothurout class. added comment to sequence class...

[mothur.git] / classifyseqscommand.h

diff --git a/classifyseqscommand.h b/classifyseqscommand.h
index 59d9ee275800195255961639d77fb6c57d97f417..55546f2032af82f9934fb1af4b73891684904cd6 100644 (file)
--- a/classifyseqscommand.h
+++ b/classifyseqscommand.h
@@ -166,7 +166,7 @@ static DWORD WINAPI MyClassThreadFunction(LPVOID lpParam){
                //make classify
                Classify* myclassify;
         string outputMethodTag = pDataArray->method + ".";
-               if(pDataArray->method == "bayesian"){   myclassify = new Bayesian(pDataArray->taxonomyFileName, pDataArray->templateFileName, pDataArray->search, pDataArray->kmerSize, pDataArray->cutoff, pDataArray->iters, pDataArray->threadID, pDataArray->flip, pDataArray->writeShortcuts);             }
+               if(pDataArray->method == "wang"){       myclassify = new Bayesian(pDataArray->taxonomyFileName, pDataArray->templateFileName, pDataArray->search, pDataArray->kmerSize, pDataArray->cutoff, pDataArray->iters, pDataArray->threadID, pDataArray->flip, pDataArray->writeShortcuts);             }
                else if(pDataArray->method == "knn"){   myclassify = new Knn(pDataArray->taxonomyFileName, pDataArray->templateFileName, pDataArray->search, pDataArray->kmerSize, pDataArray->gapOpen, pDataArray->gapExtend, pDataArray->match, pDataArray->misMatch, pDataArray->numWanted, pDataArray->threadID);                           }
         else if(pDataArray->method == "zap"){  
             outputMethodTag = pDataArray->search + "_" + outputMethodTag;
@@ -174,7 +174,7 @@ static DWORD WINAPI MyClassThreadFunction(LPVOID lpParam){
             else {  myclassify = new AlignTree(pDataArray->templateFileName, pDataArray->taxonomyFileName, pDataArray->cutoff);  }
         }
                else {
-                       pDataArray->m->mothurOut(pDataArray->search + " is not a valid method option. I will run the command using bayesian.");
+                       pDataArray->m->mothurOut(pDataArray->method + " is not a valid method option. I will run the command using wang.");
                        pDataArray->m->mothurOutEndLine();
                        myclassify = new Bayesian(pDataArray->taxonomyFileName, pDataArray->templateFileName, pDataArray->search, pDataArray->kmerSize, pDataArray->cutoff, pDataArray->iters, pDataArray->threadID, pDataArray->flip, pDataArray->writeShortcuts);     
                }