include mcmcio file

Makefile.am

@@ -33,6 +33,7 @@ common_src = src/random/fastfunc.cpp \
 			 src/vcfReader.cpp \
 			 src/variantIndex.cpp \
 			 src/gzstream/gzstream.cpp \
+			 src/export/mcmcIO.cpp \
 			 src/export/dEploidIOExport.cpp \
 			 src/export/dEploidIOExportPosteriorProb.cpp \
 			 src/export/writeMcmcRelated.cpp \

src/export/mcmcIO.cpp

@@ -0,0 +1,33 @@
+/*
+ * dEploid is used for deconvoluting Plasmodium falciparum genome from
+ * mix-infected patient sample.
+ *
+ * Copyright (C) 2016-2017 University of Oxford
+ *
+ * Author: Sha (Joe) Zhu
+ *
+ * This file is part of dEploid.
+ *
+ * dEploid is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ *
+ */
+
+#include "mcmc.hpp"
+
+void McmcMachinery::printArray(vector <double> array) {
+    for (auto const& value : array) {
+        cout << value << " ";
+    }
+    cout << endl;
+}

src/mcmc.hpp

@@ -173,13 +173,7 @@ class McmcMachinery {
     double calcLogPriorTitre(const vector <double> &tmpTitre);
     double rBernoulli(double p);
 
-    void printArray(vector <double> array) {
-        for (auto const& value : array) {
-            cout << value << " ";
-        }
-        cout << endl;
-    }
-
+    void printArray(vector <double> array);
     void sampleMcmcEvent(bool useIBD = false);
     void recordMcmcMachinery();
     bool recordingMcmcBool_;
@@ -231,4 +225,3 @@ class McmcMachinery {
 };
 
 #endif
-