diff --git a/src/nf_modules/alntools/main.nf b/src/nf_modules/alntools/main.nf
index 31e9c6ca63ac35fec3c318aba348de0ec5aba26b..2363e47821165f70f375be111739ac4cee4c07b0 100644
--- a/src/nf_modules/alntools/main.nf
+++ b/src/nf_modules/alntools/main.nf
@@ -12,7 +12,7 @@ process bam2ec {
   }
 
   input:
-    tuple val(file_id), path(bam)
+    tuple val(file_id), path(bam), path(bam_idx)
     tuple val(gtf_id), path(gtf)
 
   output: