added debug statements to trim.seqs

[mothur.git] / getcurrentcommand.cpp

diff --git a/getcurrentcommand.cpp b/getcurrentcommand.cpp
index 12dcc82ff6a1bfb1a105d3d6deac903e855cea9b..c3b5f0af58ab6ef0627a6a42784c76c2813184bf 100644 (file)
--- a/getcurrentcommand.cpp
+++ b/getcurrentcommand.cpp
@@ -138,6 +138,10 @@ int GetCurrentCommand::execute(){
                                        m->setTaxonomyFile("");
                                }else if (types[i] == "flow") {
                                        m->setFlowFile("");
+                }else if (types[i] == "biom") {
+                                       m->setBiomFile("");
+                }else if (types[i] == "counttable") {
+                                       m->setCountTableFile("");
                                }else if (types[i] == "processors") {
                                        m->setProcessors("1");
                                }else if (types[i] == "all") {