diff --git a/src/nf_modules/emase/main.nf b/src/nf_modules/emase/main.nf
index 850abe83fe0c33f48d5852927084f6aa5c4fa5cf..16d97e6a27c9c5dfc31c45258e9444a29800452f 100644
--- a/src/nf_modules/emase/main.nf
+++ b/src/nf_modules/emase/main.nf
@@ -12,11 +12,10 @@ process diploid_genome {
   }
 
   input:
-    tuple val(genome_a), path(fasta_a)
-    tuple val(genome_b), path(fasta_b)
+    tuple val(genome_a), path(fasta_a), val(genome_b), path(fasta_b)
 
   output:
-    tuple val(file_id), path(".fa"), emit: index
+    tuple val(file_id), path(".fa"), emit: fasta
 
   script:
 """