X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=validcalculator.cpp;h=cf783f30f82db5a0b5e3c2fa040775fb85463f46;hb=1d7a10dc3dafd1606d6255bdb54e02429cbee47c;hp=b29ff5797f9db61b3c3cb31e32628cc251c3b95e;hpb=39a9b207d1046f3409781c45e38b7a871133d224;p=mothur.git

diff --git a/validcalculator.cpp b/validcalculator.cpp
index b29ff57..cf783f3 100644
--- a/validcalculator.cpp
+++ b/validcalculator.cpp
@@ -12,21 +12,26 @@
 /********************************************************************/
 ValidCalculators::ValidCalculators() {
 	try {
+		 m = MothurOut::getInstance();
+		
 		 initialSingle();
 		 initialShared();
 		 initialRarefaction();
 		 initialSharedRarefact();
 		 initialSummary();
 		 initialSharedSummary();
+		 initialVennSingle();
+		 initialVennShared();
+		 initialTreeGroups();
+		 initialBoot();
+		 initialDistance();
+		 initialMatrix();
+		 initialHeat();
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function ValidCalculator. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "ValidCalculator");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function ValidCalculator. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}		 
 }
 
 /********************************************************************/
@@ -43,11 +48,11 @@ bool ValidCalculators::isValidCalculator(string parameter, string calculator) {
 			if ((single.find(calculator)) != (single.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the collect.single command and will be disregarded. Valid estimators are ";
+				m->mothurOut(calculator + " is not a valid estimator for the collect.single command and will be disregarded. Valid estimators are ");
 				for (it = single.begin(); it != single.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
 		//are you looking for a calculator for a shared parameter
 		}else if (parameter == "shared") {
@@ -55,11 +60,11 @@ bool ValidCalculators::isValidCalculator(string parameter, string calculator) {
 			if ((shared.find(calculator)) != (shared.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the collect.shared command and will be disregarded.  Valid estimators are ";
+				m->mothurOut(calculator +  " is not a valid estimator for the collect.shared command and will be disregarded.  Valid estimators are ");
 				for (it = shared.begin(); it != shared.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
 		//are you looking for a calculator for a rarefaction parameter
 		}else if (parameter == "rarefaction") {
@@ -67,11 +72,11 @@ bool ValidCalculators::isValidCalculator(string parameter, string calculator) {
 			if ((rarefaction.find(calculator)) != (rarefaction.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the rarefaction.single command and will be disregarded. Valid estimators are ";
+				m->mothurOut(calculator + " is not a valid estimator for the rarefaction.single command and will be disregarded. Valid estimators are ");
 				for (it = rarefaction.begin(); it != rarefaction.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
 		//are you looking for a calculator for a summary parameter
 		}else if (parameter == "summary") {
@@ -79,11 +84,11 @@ bool ValidCalculators::isValidCalculator(string parameter, string calculator) {
 			if ((summary.find(calculator)) != (summary.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the summary.shared command and will be disregarded. Valid estimators are ";
+				m->mothurOut(calculator + " is not a valid estimator for the summary.shared command and will be disregarded. Valid estimators are ");
 				for (it = summary.begin(); it != summary.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
 		//are you looking for a calculator for a sharedsummary parameter
 		}else if (parameter == "sharedsummary") {
@@ -91,60 +96,144 @@ bool ValidCalculators::isValidCalculator(string parameter, string calculator) {
 			if ((sharedsummary.find(calculator)) != (sharedsummary.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the summary.shared command and will be disregarded. Valid estimators are ";
+				m->mothurOut(calculator +  " is not a valid estimator for the summary.shared command and will be disregarded. Valid estimators are ");
 				for (it = sharedsummary.begin(); it != sharedsummary.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
 		}else if (parameter == "sharedrarefaction") {
 			//is it valid
 			if ((sharedrarefaction.find(calculator)) != (sharedrarefaction.end())) {
 				return true;
 			}else { 
-				cout << calculator << " is not a valid estimator for the rarefaction.shared command and will be disregarded. Valid estimator is ";
+				m->mothurOut(calculator + " is not a valid estimator for the rarefaction.shared command and will be disregarded. Valid estimator is ");
 				for (it = sharedrarefaction.begin(); it != sharedrarefaction.end(); it++) {
-					cout << it->first << ", ";
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "vennsingle") {
+			//is it valid
+			if ((vennsingle.find(calculator)) != (vennsingle.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator + " is not a valid estimator for the venn command in single mode and will be disregarded. Valid estimators are ");
+				for (it = vennsingle.begin(); it != vennsingle.end(); it++) {
+					m->mothurOut(it->first + ", ");
 				}
-				cout << endl;
+				m->mothurOutEndLine();
 				return false; }
-		//not a valid paramter
+		}else if (parameter == "vennshared") {
+			//is it valid
+			if ((vennshared.find(calculator)) != (vennshared.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator + " is not a valid estimator for the venn command in shared mode and will be disregarded. Valid estimators are ");
+				for (it = vennshared.begin(); it != vennshared.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "treegroup") {
+			//is it valid
+			if ((treegroup.find(calculator)) != (treegroup.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator + " is not a valid estimator for the tree.shared command and will be disregarded. Valid estimators are ");
+				for (it = treegroup.begin(); it != treegroup.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "matrix") {
+			//is it valid
+			if ((matrix.find(calculator)) != (matrix.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator +  " is not a valid estimator for the matrix.output command and will be disregarded. Valid estimators are ");
+				for (it = matrix.begin(); it != matrix.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "heat") {
+			//is it valid
+			if ((heat.find(calculator)) != (heat.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator + " is not a valid estimator for the heatmap.sim command and will be disregarded. Valid estimators are ");
+				for (it = heat.begin(); it != heat.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "boot") {
+			//is it valid
+			if ((boot.find(calculator)) != (boot.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator + " is not a valid estimator for the bootstrap.shared command and will be disregarded. Valid estimators are ");
+				for (it = boot.begin(); it != boot.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		}else if (parameter == "distance") {
+			//is it valid
+			if ((distance.find(calculator)) != (distance.end())) {
+				return true;
+			}else { 
+				m->mothurOut(calculator +  " is not a valid estimator for the distance command and will be disregarded. Valid calculators are ");
+				for (it = distance.begin(); it != distance.end(); it++) {
+					m->mothurOut(it->first + ", ");
+				}
+				m->mothurOutEndLine();
+				return false; }
+		//not a valid parameter
 		}else { return false; }
 		
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function isValidCalculator. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "isValidCalculator");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function isValidCalculator. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /********************************************************************/
 void ValidCalculators::initialSingle() {
 	try {	
-	
-		single["sobs"]		= "sobs";
-		single["chao"]		= "chao";
-		single["ace"]		= "ace";
-		single["jack"]		= "jack";
-		single["shannon"]	= "shannon";
-		single["npshannon"]	= "npshannon";
-		single["simpson"]	= "simpson";
-		single["bootstrap"]	= "bootstrap";
-		single["default"]	= "default";
-		single["nseqs"]		= "nseqs";
+		single["sobs"]	        = "sobs";
+		single["chao"]		    = "chao";
+		single["ace"]		    = "ace";
+		single["jack"]		    = "jack";
+		single["shannon"]	    = "shannon";
+		single["npshannon"]    	= "npshannon";
+		single["shannoneven"]	= "shannoneven";
+		single["smithwilson"]	= "smithwilson";
+		single["heip"]			= "heip";
+		single["simpson"]	    = "simpson";
+		single["simpsoneven"]   = "simpsoneven";
+		single["invsimpson"]	= "invsimpson";
+		single["bergerparker"]  = "bergerparker";
+		single["bootstrap"]    	= "bootstrap";
+		single["geometric"]     = "geometric";
+		single["logseries"]		= "logseries";
+		single["qstat"]         = "qstat";
+		single["bstick"]        = "bstick";
+		single["goodscoverage"] = "goodscoverage";
+		single["nseqs"]			= "nseqs";
+		single["coverage"]		= "coverage";
+		single["efron"]         = "efron";
+		single["boneh"]         = "boneh";
+		single["solow"]         = "solow";
+		single["shen"]          = "shen";
+		single["default"]	    = "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialSingle. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialSingle");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialSingle. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /********************************************************************/
@@ -153,27 +242,30 @@ void ValidCalculators::initialShared() {
 		shared["sharedsobs"]			= "sharedsobs";
 		shared["sharedchao"]			= "sharedchao";
 		shared["sharedace"]				= "sharedace";
-		shared["sharedjabund"]			= "sharedjabund";
-		shared["sharedsorensonabund"]	= "sharedsorensonabund";
-		shared["sharedjclass"]			= "sharedjclass";
-		shared["sharedsorclass"]		= "sharedsorclass";
-		shared["sharedjest"]			= "sharedjest";
-		shared["sharedsorest"]			= "sharedsorest";
-		shared["sharedthetayc"]			= "sharedthetayc";
-		shared["sharedthetan"]			= "sharedthetan";
+		shared["jabund"]				= "jabund";
+		shared["sorabund"]				= "sorabund";
+		shared["jclass"]				= "jclass";
+		shared["sorclass"]				= "sorclass";
+		shared["jest"]					= "jest";
+		shared["sorest"]				= "sorest";
+		shared["thetayc"]				= "thetayc";
+		shared["thetan"]				= "thetan";
+		shared["kstest"]				= "kstest";
+		shared["whittaker"]			    = "whittaker";
 		shared["sharednseqs"]			= "sharednseqs";
-		shared["sharedochiai"]			= "sharedochiai";
-		shared["sharedanderberg"]		= "sharedanderberg";
+		shared["ochiai"]				= "ochiai";
+		shared["anderberg"]				= "anderberg";
+		shared["kulczynski"]			= "kulczynski";
+		shared["kulczynskicody"]		= "kulczynskicody";
+		shared["lennon"]				= "lennon";
+		shared["morisitahorn"]			= "morisitahorn";
+		shared["braycurtis"]			= "braycurtis";
 		shared["default"]	            = "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialShared. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialShared");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialShared. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /********************************************************************/
@@ -184,20 +276,22 @@ void ValidCalculators::initialRarefaction() {
 		rarefaction["ace"]			= "ace";
 		rarefaction["jack"]			= "jack";
 		rarefaction["shannon"]		= "shannon";
+		rarefaction["smithwilson"]	= "smithwilson";
+		rarefaction["heip"]			= "heip";
 		rarefaction["npshannon"]	= "npshannon";
+		rarefaction["shannoneven"]	= "shannoneven";
 		rarefaction["simpson"]		= "simpson";
+		rarefaction["invsimpson"]	= "invsimpson";
+		rarefaction["simpsoneven"]	= "simpsoneven";
 		rarefaction["bootstrap"]	= "bootstrap";
 		rarefaction["nseqs"]		= "nseqs";
+		rarefaction["coverage"]		= "coverage";
 		rarefaction["default"]	    = "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialRarefaction. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialRarefaction");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialRarefaction. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /********************************************************************/
@@ -209,20 +303,32 @@ void ValidCalculators::initialSummary() {
 		summary["ace"]			= "ace";
 		summary["jack"]			= "jack";
 		summary["shannon"]		= "shannon";
+		summary["heip"]			= "heip";
+		summary["shannoneven"]	= "shannoneven";
+		summary["smithwilson"]	= "smithwilson";
+		summary["invsimpson"]	= "invsimpson";
 		summary["npshannon"]	= "npshannon";
 		summary["simpson"]		= "simpson";
+		summary["simpsoneven"]	= "simpsoneven";
+		summary["bergerparker"] = "bergerparker";
+		summary["geometric"]    = "geometric";
 		summary["bootstrap"]	= "bootstrap";
+		summary["logseries"]    = "logseries";
+		summary["qstat"]        = "qstat";
+		summary["bstick"]       = "bstick";
 		summary["nseqs"]		= "nseqs";
+		summary["goodscoverage"]= "goodscoverage";
+		summary["coverage"]		= "coverage";
+		summary["efron"]        = "efron";
+		summary["boneh"]        = "boneh";
+		summary["solow"]        = "solow";
+		summary["shen"]         = "shen";
 		summary["default"]	    = "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialSummary. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialSummary");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialSummary. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /********************************************************************/
@@ -231,27 +337,30 @@ void ValidCalculators::initialSharedSummary() {
 		sharedsummary["sharedsobs"]				= "sharedsobs";
 		sharedsummary["sharedchao"]				= "sharedchao";
 		sharedsummary["sharedace"]				= "sharedace";
-		sharedsummary["sharedjabund"]			= "sharedjabund";
-		sharedsummary["sharedsorensonabund"]	= "sharedsorensonabund";
-		sharedsummary["sharedjclass"]			= "sharedjclass";
-		sharedsummary["sharedsorclass"]			= "sharedsorclass";
-		sharedsummary["sharedjest"]				= "sharedjest";
-		sharedsummary["sharedsorest"]			= "sharedsorest";
-		sharedsummary["sharedthetayc"]			= "sharedthetayc";
-		sharedsummary["sharedthetan"]			= "sharedthetan";
+		sharedsummary["jabund"]					= "jabund";
+		sharedsummary["sorabund"]			= "sorabund";
+		sharedsummary["jclass"]					= "jclass";
+		sharedsummary["sorclass"]				= "sorclass";
+		sharedsummary["jest"]					= "jest";
+		sharedsummary["sorest"]					= "sorest";
+		sharedsummary["thetayc"]				= "thetayc";
+		sharedsummary["thetan"]					= "thetan";
+		sharedsummary["kstest"]					= "kstest";
+		sharedsummary["whittaker"]				= "whittaker";
 		sharedsummary["sharednseqs"]			= "sharednseqs";
-		sharedsummary["sharedochiai"]			= "sharedochiai";
-		sharedsummary["sharedanderberg"]		= "sharedanderberg";
+		sharedsummary["ochiai"]					= "ochiai";
+		sharedsummary["anderberg"]				= "anderberg";
+		sharedsummary["kulczynski"]				= "kulczynski";
+		sharedsummary["kulczynskicody"]			= "kulczynskicody";
+		sharedsummary["lennon"]					= "lennon";
+		sharedsummary["morisitahorn"]			= "morisitahorn";
+		sharedsummary["braycurtis"]				= "braycurtis";
 		sharedsummary["default"]				= "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialSharedSummary. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialSharedSummary");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialSharedSummary. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 
@@ -264,16 +373,203 @@ void ValidCalculators::initialSharedRarefact() {
 		sharedrarefaction["default"]	    = "default";
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the ValidCalculator class Function initialSharedRarefact. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "ValidCalculator", "initialSharedRarefact");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the ValidCalculator class function initialSharedRarefact. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+}
+
+
+/********************************************************************/
+void ValidCalculators::initialVennSingle() {
+	try {
+		vennsingle["sobs"]	        = "sobs";
+		vennsingle["chao"]		    = "chao";
+		vennsingle["ace"]			= "ace";
+		vennsingle["jack"]		    = "jack";
+		vennsingle["nseqs"]		    = "nseqs";
+		vennsingle["default"]		= "default";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialVennSingle");
 		exit(1);
-	}	
+	}
 }
 
 /********************************************************************/
+void ValidCalculators::initialVennShared() {
+	try {
+		vennshared["sharedsobs"]	= "sharedsobs";
+		vennshared["sharedchao"]	= "sharedchao";
+		vennshared["sharedace"]		= "sharedace";
+		vennshared["nseqs"]			= "nseqs";
+		vennshared["default"]		= "default";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialVennShared");
+		exit(1);
+	}
+}
 
+/********************************************************************/
+void ValidCalculators::initialTreeGroups() {
+	try {	
+		treegroup["jabund"]					= "jabund";
+		treegroup["sorabund"]				= "sorabund";
+		treegroup["jclass"]					= "jclass";
+		treegroup["sorclass"]				= "sorclass";
+		treegroup["jest"]					= "jest";
+		treegroup["sorest"]					= "sorest";
+		treegroup["thetayc"]				= "thetayc";
+		treegroup["thetan"]					= "thetan";
+		treegroup["morisitahorn"]			= "morisitahorn";
+		treegroup["braycurtis"]				= "braycurtis";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialTreeGroups");
+		exit(1);
+	}
+}
+/********************************************************************/
+void ValidCalculators::initialHeat() {
+	try {	
+		heat["jabund"]				= "jabund";
+		heat["sorabund"]			= "sorabund";
+		heat["jclass"]				= "jclass";
+		heat["sorclass"]			= "sorclass";
+		heat["jest"]				= "jest";
+		heat["sorest"]				= "sorest";
+		heat["thetayc"]				= "thetayc";
+		heat["thetan"]				= "thetan";
+		heat["morisitahorn"]		= "morisitahorn";
+		heat["braycurtis"]			= "braycurtis";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialHeat");
+		exit(1);
+	}
+}
+
+/********************************************************************/
+void ValidCalculators::initialMatrix() {
+	try {	
+		matrix["jabund"]				= "jabund";
+		matrix["sorabund"]				= "sorabund";
+		matrix["jclass"]				= "jclass";
+		matrix["sorclass"]				= "sorclass";
+		matrix["jest"]					= "jest";
+		matrix["sorest"]				= "sorest";
+		matrix["thetayc"]				= "thetayc";
+		matrix["thetan"]				= "thetan";
+		matrix["morisitahorn"]			= "morisitahorn";
+		matrix["braycurtis"]			= "braycurtis";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialMatrix");
+		exit(1);
+	}
+}
+
+/********************************************************************/
+void ValidCalculators::initialBoot() {
+	try {	
+		boot["jabund"]				= "jabund";
+		boot["sorabund"]			= "sorabund";
+		boot["jclass"]				= "jclass";
+		boot["sorclass"]			= "orclass";
+		boot["jest"]				= "jest";
+		boot["sorest"]				= "sorest";
+		boot["thetayc"]				= "thetayc";
+		boot["thetan"]				= "thetan";
+		boot["morisitahorn"]		= "morisitahorn";
+		boot["braycurtis"]			= "braycurtis";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialBoot");
+		exit(1);
+	}
+}
+/********************************************************************/
+void ValidCalculators::initialDistance() {
+	try {	
+		distance["nogaps"]		= "nogaps";
+		distance["eachgap"]		= "eachgap";
+		distance["onegap"]		= "onegap";
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "initialDistance");
+		exit(1);
+	}
+}
+
+/********************************************************************/
+void ValidCalculators::printCalc(string parameter, ostream& out) {
+	try{
+		out << "The available estimators for calc are ";
+		//are you looking for a calculator for a single parameter
+		if (parameter == "single") {
+			for (it = single.begin(); it != single.end(); it++) {
+				out << it->first << ", ";
+			}
+		//are you looking for a calculator for a shared parameter
+		}else if (parameter == "shared") {
+			for (it = shared.begin(); it != shared.end(); it++) {
+				out << it->first << ", ";
+			}
+		//are you looking for a calculator for a rarefaction parameter
+		}else if (parameter == "rarefaction") {
+			for (it = rarefaction.begin(); it != rarefaction.end(); it++) {
+				out << it->first << ", ";
+			}
+		//are you looking for a calculator for a summary parameter
+		}else if (parameter == "summary") {
+			for (it = summary.begin(); it != summary.end(); it++) {
+				out << it->first << ", ";
+			}
+		//are you looking for a calculator for a sharedsummary parameter
+		}else if (parameter == "sharedsummary") {
+			for (it = sharedsummary.begin(); it != sharedsummary.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "sharedrarefaction") {
+			for (it = sharedrarefaction.begin(); it != sharedrarefaction.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "vennsingle") {
+			for (it = vennsingle.begin(); it != vennsingle.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "vennshared") {
+			for (it = vennshared.begin(); it != vennshared.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "treegroup") {
+			for (it = treegroup.begin(); it != treegroup.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "matrix") {
+			for (it = matrix.begin(); it != matrix.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "heat") {
+			for (it = heat.begin(); it != heat.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "boot") {
+			for (it = boot.begin(); it != boot.end(); it++) {
+				out << it->first << ", ";
+			}
+		}else if (parameter == "distance") {
+			for (it = distance.begin(); it != distance.end(); it++) {
+				out << it->first << ", ";
+			}
+		}
 
+		out << endl;
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ValidCalculator", "printCalc");
+		exit(1);
+	}
+}
+/********************************************************************/