1.12.1

[mothur.git] / classifyseqscommand.cpp

diff --git a/classifyseqscommand.cpp b/classifyseqscommand.cpp
index 0635fdeb4cd9a72de87d786d6a0aa30056b99a7d..a95f436dd7ffdf4403d316be77a1f8ab580f21f5 100644 (file)
--- a/classifyseqscommand.cpp
+++ b/classifyseqscommand.cpp
@@ -399,10 +399,15 @@ int ClassifySeqsCommand::execute(){
                
                        m->mothurOut("Classifying sequences from " + fastaFileNames[s] + " ..." ); m->mothurOutEndLine();
                        
+                       string RippedTaxName = getRootName(getSimpleName(taxonomyFileName));
+                       RippedTaxName = getExtension(RippedTaxName.substr(0, RippedTaxName.length()-1));
+                       if (RippedTaxName[0] == '.') { RippedTaxName = RippedTaxName.substr(1, RippedTaxName.length()); }
+                       RippedTaxName +=  "."; 
+               
                        if (outputDir == "") { outputDir += hasPath(fastaFileNames[s]); }
-                       string newTaxonomyFile = outputDir + getRootName(getSimpleName(fastaFileNames[s])) + getRootName(getSimpleName(taxonomyFileName)) + "taxonomy";
+                       string newTaxonomyFile = outputDir + getRootName(getSimpleName(fastaFileNames[s])) + RippedTaxName + "taxonomy";
                        string tempTaxonomyFile = outputDir + getRootName(getSimpleName(fastaFileNames[s])) + "taxonomy.temp";
-                       string taxSummary = outputDir + getRootName(getSimpleName(fastaFileNames[s])) + getRootName(getSimpleName(taxonomyFileName)) + "tax.summary";
+                       string taxSummary = outputDir + getRootName(getSimpleName(fastaFileNames[s])) + RippedTaxName + "tax.summary";
                        
                        outputNames.push_back(newTaxonomyFile);
                        outputNames.push_back(taxSummary);