diff --git a/CHANGELOG.md b/CHANGELOG.md
index b4a6aeae9..196c50dbd 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -42,6 +42,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 * [#497](https://github.com/nf-core/eager/issues/497) - Simplifies number of parameters required to run bam filtering
 * [#501](https://github.com/nf-core/eager/issues/501) - Adds additional validation checks for MALT/MaltExtract database input files
 * [#508](https://github.com/nf-core/eager/issues/508) - Made Markduplicates default dedupper due to narrower context specificity of dedup
+* [#516](https://github.com/nf-core/eager/issues/516) - Made bedtools not report out of memory exit code when warning of inconsistant FASTA/Bed entry names
 
 ### `Dependencies`
 
diff --git a/main.nf b/main.nf
index 769a07f37..52841154b 100644
--- a/main.nf
+++ b/main.nf
@@ -2026,8 +2026,8 @@ process bedtools {
 
   script:
   """
-  bedtools coverage -a ${anno_file} -b $bam | pigz -p ${task.cpus} > "${bam.baseName}".breadth.gz
-  bedtools coverage -a ${anno_file} -b $bam -mean | pigz -p ${task.cpus} > "${bam.baseName}".depth.gz
+  bedtools coverage -nonamecheck -a ${anno_file} -b $bam | pigz -p ${task.cpus} > "${bam.baseName}".breadth.gz
+  bedtools coverage -nonamecheck -a ${anno_file} -b $bam -mean | pigz -p ${task.cpus} > "${bam.baseName}".depth.gz
   """
 }