added method parameter to get.oturep. options method=abundance or distance. default...

[mothur.git] / mothurout.cpp

diff --git a/mothurout.cpp b/mothurout.cpp
index 3e4db45bcc43990a18f7d8e51493388d28a6d850..8892febb384cbb07233858f2c6b608f8153ca09f 100644 (file)
--- a/mothurout.cpp
+++ b/mothurout.cpp
@@ -23,6 +23,7 @@ set<string> MothurOut::getCurrentTypes()  {
         
         set<string> types;
         types.insert("fasta");
+        types.insert("summary");
         types.insert("accnos");
         types.insert("column");
         types.insert("design");
@@ -81,6 +82,7 @@ void MothurOut::printCurrentFiles()  {
         if (biomfile != "")                    {  mothurOut("biom=" + biomfile); mothurOutEndLine();                           }
         if (counttablefile != "")      {  mothurOut("count=" + counttablefile); mothurOutEndLine();    }
                if (processors != "1")          {  mothurOut("processors=" + processors); mothurOutEndLine();           }
+        if (summaryfile != "")         {  mothurOut("summary=" + summaryfile); mothurOutEndLine();             }
                
        }
        catch(exception& e) {
@@ -115,6 +117,7 @@ bool MothurOut::hasCurrentFiles()  {
                if (flowfile != "")                     {  return true;                 }
         if (biomfile != "")                    {  return true;                 }
         if (counttablefile != "")      {  return true;                 }
+        if (summaryfile != "") {  return true;                 }
                if (processors != "1")          {  return true;                 }
                
                return hasCurrent;
@@ -151,6 +154,7 @@ void MothurOut::clearCurrentFiles()  {
                flowfile = "";
         biomfile = "";
         counttablefile = "";
+        summaryfile = "";
                processors = "1";
        }
        catch(exception& e) {