change to phylo.diversity to make output = total branch length seen so far for each...

[mothur.git] / phylodiversitycommand.cpp

diff --git a/phylodiversitycommand.cpp b/phylodiversitycommand.cpp
index 19c65ce9a11c30e19d6d10a477165c1bcbe164c1..0c2f72d0ad6fd57f628ec01d16ba6c8c31a00d8c 100644 (file)
--- a/phylodiversitycommand.cpp
+++ b/phylodiversitycommand.cpp
@@ -113,7 +113,7 @@ int PhyloDiversityCommand::execute(){
                
                        if (m->control_pressed) { for (int i = 0; i < outputNames.size(); i++) {        remove(outputNames[i].c_str());         } return 0; }
                        
-                       phylo.setTotalGroupBranchLengths(trees[i]);
+                       //phylo.setTotalGroupBranchLengths(trees[i]);
                        
                        string outFile = outputDir + getRootName(getSimpleName(globaldata->getTreeFile()))  + toString(i+1) + ".phylo.diversity";
                        if (rarefy) { outFile += ".rarefaction"; }