X-Git-Url: https://git.donarmstrong.com/?p=rsem.git;a=blobdiff_plain;f=PairedEndModel.h;h=0d2c9b3f216db8df91fa47a85c57065123fe2331;hp=f3f95fe29874881b73f3a76633d83efa1e8059e8;hb=83ce658a4b9c5f04c081316314b66b94ad5ffbde;hpb=9eef8b58056b7cdaad1b4bdb2b2904d9fc0ff430

diff --git a/PairedEndModel.h b/PairedEndModel.h
index f3f95fe..0d2c9b3 100644
--- a/PairedEndModel.h
+++ b/PairedEndModel.h
@@ -9,6 +9,7 @@
 #include<algorithm>
 #include<sstream>
 #include<iostream>
+#include<vector>
 
 #include "utils.h"
 #include "my_assert.h"
@@ -193,12 +194,12 @@ public:
 
 	const LenDist& getGLD() { return *gld; }
 
-	void startSimulation(simul*, double*);
+	void startSimulation(simul*, const std::vector<double>&);
 	bool simulate(READ_INT_TYPE, PairedEndRead&, int&);
 	void finishSimulation();
 
 	//Use it after function 'read' or 'estimateFromReads'
-	double* getMW() { 
+	const double* getMW() { 
 	  assert(mw != NULL);
 	  return mw;
 	}
@@ -349,7 +350,7 @@ void PairedEndModel::write(const char* outF) {
 	fclose(fo);
 }
 
-void PairedEndModel::startSimulation(simul* sampler, double* theta) {
+void PairedEndModel::startSimulation(simul* sampler, const std::vector<double>& theta) {
 	this->sampler = sampler;
 
 	theta_cdf = new double[M + 1];