X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getcurrentcommand.cpp;h=86046b64375ebd151c27e5909c0efdc9d0149bbf;hb=5a4ac4f954c4b4445bcee272f1f8220ddcc9c1e4;hp=ca832314d66dbe371e314db292ab6f441d2ee351;hpb=d2390ede25cc211f95f99e377d5654bad7e6950e;p=mothur.git

diff --git a/getcurrentcommand.cpp b/getcurrentcommand.cpp
index ca83231..86046b6 100644
--- a/getcurrentcommand.cpp
+++ b/getcurrentcommand.cpp
@@ -140,6 +140,8 @@ int GetCurrentCommand::execute(){
 					m->setFlowFile("");
                 }else if (types[i] == "biom") {
 					m->setBiomFile("");
+                }else if (types[i] == "count") {
+					m->setCountTableFile("");
 				}else if (types[i] == "processors") {
 					m->setProcessors("1");
 				}else if (types[i] == "all") {