From 1992ee7bc812ce79ee395b834da50029363ae2fb Mon Sep 17 00:00:00 2001
From: Anand Mayakonda <anandmt3@gmail.com>
Date: Mon, 10 Jun 2024 10:41:31 +0200
Subject: [PATCH] fix typo for #1028

---
 R/ntcounts.R | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/R/ntcounts.R b/R/ntcounts.R
index 4a0f4d7..4c2523e 100644
--- a/R/ntcounts.R
+++ b/R/ntcounts.R
@@ -28,8 +28,8 @@ bamreadcounts = function(bam = NULL, loci = NULL, zerobased = FALSE, mapq = 10,
       stop("BAM file does not exist: ", x)
     }
 
-    if(!file.exists(paste0(bam , ".bai"))){
-      stop("Index file for ", bam, " not found!")
+    if(!file.exists(paste0(x , ".bai"))){
+      stop("Index file for ", x, " not found!")
     }
 
     gsub(pattern = "\\.bam$", replacement = "", x = basename(x), ignore.case = TRUE)