Bugfixes (mostly for ARM compatibility) and long read test data

FindJunction.cpp

@@ -46,7 +46,7 @@ struct _junction
 char line[LINE_SIZE] ;
 char col[11][LINE_SIZE] ; // The option fields is not needed.
 char strand ; // Extract XS field
-char noncanonStrandInfo ;
+signed char noncanonStrandInfo ;
 //bool secondary ;
 int NH ;
 int editDistance ;

Vote.cpp

@@ -72,7 +72,7 @@ int CompDouble( const void *p1, const void *p2 )
 
 int main( int argc, char *argv[] )
 {
-	int i, j, k ;
+	int i, j, k = 0 ;
 	double minAvgDepth = 1.0 ;
 	double fraction = 1.0 ;
 	int minSampleCnt = 3 ;

alignments.hpp

@@ -484,6 +484,7 @@ class Alignments
 		}
 		if ( gcCnt >= threshold * b->core.l_qseq )
 			return true ;
+        return false;
 	}
 
 	void GetGeneralInfo( bool stopEarly = false )