Merge pull request #3 from mourisl/dev

Fix several function return issues.

Author: mourisl

Analyzer.cpp

@@ -181,6 +181,7 @@ void *ReadAssignmentToFragmentAssignment_Thread(void *pArg)
 			reads1[i].fragmentAssigned = true ;
 		fragmentAssignments[i] = fragmentAssignment ;
 	}
+	pthread_exit( NULL ) ;
 }
 
 void *AddFragmentAlignmentInfo_Thread(void *pArg)
@@ -209,6 +210,7 @@ void *AddFragmentAlignmentInfo_Thread(void *pArg)
 		else
 			refSet.AddFragmentAlignmentInfo(reads1[i].seq, NULL, fragmentAssignments[i]) ;
 	}
+	pthread_exit( NULL ) ;
 }
 
 int main(int argc, char *argv[])

BarcodeCorrector.hpp

@@ -151,7 +151,7 @@ class BarcodeCorrector
 		fclose(fp) ;
 	}
 
-	int CollectBackgroundDistribution(ReadFiles &barcodeFile, int start, int end, bool revcomp, int caseCnt = 2000000) 
+	void CollectBackgroundDistribution(ReadFiles &barcodeFile, int start, int end, bool revcomp, int caseCnt = 2000000) 
 	{
 		int readCnt = 0 ;
 		char buffer[256] ;

SeqSet.hpp

@@ -135,7 +135,7 @@ struct _overlap
 			return similarity >= b.similarity ;	
 	}
 
-	double UpdateSimilarity( int rlen, int slen, int mcnt )
+	void UpdateSimilarity( int rlen, int slen, int mcnt )
 	{
 		double origLen = matchCnt / similarity ;
 		similarity = ( matchCnt + mcnt ) / ( origLen + rlen + slen ) ;
@@ -988,7 +988,7 @@ class SeqSet
 		seqs[seqIdx].weight += update;
 	}
 
-	int SetSeqWeight(int seqIdx, int weight)
+	void SetSeqWeight(int seqIdx, int weight)
 	{
 		seqs[seqIdx].weight = weight ;
 	}
@@ -2819,6 +2819,7 @@ class SeqSet
 				psum += seq.exons[i].b - seq.exons[i].a + 1 ;
 			}
 		}	
+		return psum ;
 	}
 
 	int InferKmerLength()
@@ -2838,7 +2839,7 @@ class SeqSet
 		return ret ;
 	}
 
-	int UpdateKmerLength(int kl)
+	void UpdateKmerLength(int kl)
 	{
 		int i ;
 		int seqCnt = seqs.size() ;