X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bootstrapsharedcommand.cpp;h=f63f2f496d05ac403cc7584db343067771e5ebb7;hb=23e60689fa4306234b3d05b116f25d198316d1ae;hp=7f7683bd4f3c779203d3e2944885ad65a4369bc9;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;p=mothur.git

diff --git a/bootstrapsharedcommand.cpp b/bootstrapsharedcommand.cpp
index 7f7683b..f63f2f4 100644
--- a/bootstrapsharedcommand.cpp
+++ b/bootstrapsharedcommand.cpp
@@ -78,6 +78,7 @@ BootSharedCommand::BootSharedCommand(string option) {
 		
 		//allow user to run help
 		if(option == "help") { help(); abort = true; calledHelp = true; }
+		else if(option == "citation") { citation(); abort = true; calledHelp = true;}
 		
 		else {
 			vector<string> myArray = setParameters();
@@ -143,6 +144,11 @@ BootSharedCommand::BootSharedCommand(string option) {
 				 if (calc == "default")  {  calc = "jclass-thetayc";  }
 			}
 			m->splitAtDash(calc, Estimators);
+			if (m->inUsersGroups("citation", Estimators)) { 
+				ValidCalculators validCalc; validCalc.printCitations(Estimators); 
+				//remove citation from list of calcs
+				for (int i = 0; i < Estimators.size(); i++) { if (Estimators[i] == "citation") {  Estimators.erase(Estimators.begin()+i); break; } }
+			}
 
 			string temp;
 			temp = validParameter.validFile(parameters, "iters", false);  if (temp == "not found") { temp = "1000"; }