From 9f1879c0b8f344d0def49ee3eb77a561d3d429af Mon Sep 17 00:00:00 2001
From: Bora Uyar <bora.uyar@mdc-berlin.de>
Date: Wed, 8 Nov 2023 11:26:38 +0100
Subject: [PATCH] Fixes #131

---
 scripts/count_reads.R | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/scripts/count_reads.R b/scripts/count_reads.R
index 7f47e1d..4f79ca5 100644
--- a/scripts/count_reads.R
+++ b/scripts/count_reads.R
@@ -40,7 +40,7 @@ require(GenomicAlignments)
 # define BAM file connection 
 bamfile <- Rsamtools::BamFile(file = bamFile,
                               asMates = !singleEnd,  
-                              yieldSize = 2000000)
+                              yieldSize = yieldSize)
 
 # check counting mode
 if(!counting_mode %in% c('Union', 'IntersectionStrict',