working on current change

[mothur.git] / bootstrapsharedcommand.cpp

diff --git a/bootstrapsharedcommand.cpp b/bootstrapsharedcommand.cpp
index f63f2f496d05ac403cc7584db343067771e5ebb7..478821ec861e7b537e6f15b8c44bdab86a8d2c9f 100644 (file)
--- a/bootstrapsharedcommand.cpp
+++ b/bootstrapsharedcommand.cpp
@@ -113,8 +113,13 @@ BootSharedCommand::BootSharedCommand(string option) {
                        }
                        
                        sharedfile = validParameter.validFile(parameters, "shared", true);
-                       if (sharedfile == "not found") { m->mothurOut("shared is a required parameter.");  m->mothurOutEndLine(); sharedfile = ""; abort = true; }
+                       if (sharedfile == "not found") { 
+                               sharedfile = m->getSharedFile(); 
+                               if (sharedfile != "") { m->mothurOut("Using " + sharedfile + " as input file for the shared parameter."); m->mothurOutEndLine(); }
+                               else {  m->mothurOut("You have no current shared file and the shared parameter is required."); m->mothurOutEndLine(); abort = true; }
+                       }       
                        else if (sharedfile == "not open") { sharedfile = ""; abort = true; }
+                       else { m->setSharedFile(sharedfile); }
                
                        //if the user changes the output directory command factory will send this info to us in the output parameter 
                        outputDir = validParameter.validFile(parameters, "outputdir", false);           if (outputDir == "not found"){