From c21c609017fa68b0224b0c0bba8f368d917a1c2a Mon Sep 17 00:00:00 2001
From: Chris Wright <chris.wright@nanoporetech.com>
Date: Sat, 16 May 2026 17:02:03 +0100
Subject: [PATCH] Return the correct annotation

---
 subworkflows/transcriptome.nf | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/subworkflows/transcriptome.nf b/subworkflows/transcriptome.nf
index f5eefd4..bb578a7 100644
--- a/subworkflows/transcriptome.nf
+++ b/subworkflows/transcriptome.nf
@@ -246,7 +246,7 @@ workflow transcriptome_analysis {
         }
 
     emit:
-        annotation = ref_annotation
+        annotation = analysis_annotation
         annotation_reference_summary = prepared_reference_annotation.summary
         unstranded_annotation = prepared_reference_annotation.unstranded
         joint_dir = joint_bambu.dir