diff --git a/bio/gatk/variantannotator/test/Snakefile b/bio/gatk/variantannotator/test/Snakefile
index 1aa6d4ee44..e9eab68b9d 100644
--- a/bio/gatk/variantannotator/test/Snakefile
+++ b/bio/gatk/variantannotator/test/Snakefile
@@ -2,6 +2,7 @@ rule gatk_annotator:
     input:
         vcf="calls/snvs.vcf.gz",
         aln="mapped/a.bam",
+        bai="mapped/a.bam.bai",
         ref="genome.fasta",
         db="calls/snvs.vcf.gz",
 #        intervals="targets.bed",
diff --git a/bio/gatk/variantannotator/wrapper.py b/bio/gatk/variantannotator/wrapper.py
index 5baf8591f4..e8b4150c49 100644
--- a/bio/gatk/variantannotator/wrapper.py
+++ b/bio/gatk/variantannotator/wrapper.py
@@ -32,7 +32,7 @@
 resources = [
     f"--resource:{name} {file}"
     for name, file in snakemake.input.items()
-    if name not in ["vcf", "aln", "ref", "known", "intervals"]
+    if name not in ["vcf", "aln", "ref", "known", "intervals", "bai"]
 ]