fixed some bugs and added scriptengine

[mothur.git] / mothur.cpp

diff --git a/mothur.cpp b/mothur.cpp
index 8d0e507a8f35bc7d9ee8664765194c546d736c1b..59837dd72d7dc8dbe76ee3125052461a9e7b580a 100644 (file)
--- a/mothur.cpp
+++ b/mothur.cpp
@@ -22,9 +22,16 @@ int main(int argc, char *argv[]){
 
                Engine* mothur;
                bool bail = 0;
+               string input;
 
                if(argc>1){
-                       mothur = new BatchEngine(argv[0], argv[1]);
+                       input = argv[1];
+
+                       if (input[0] == '#') {
+                               mothur = new ScriptEngine(argv[0], argv[1]);
+                       }else{
+                               mothur = new BatchEngine(argv[0], argv[1]);
+                       }
                }
                else{
                        mothur = new InteractEngine(argv[0]);