From e7e24c2d95c43d28c024817b0ebf67b2a9febf75 Mon Sep 17 00:00:00 2001
From: Sofia Stamouli <sofia.stamouli@scilifelab.se>
Date: Mon, 25 Apr 2022 09:21:29 +0200
Subject: [PATCH] Prettier and suggestions from review

---
 conf/modules.config | 2 +-
 nextflow.config     | 1 -
 2 files changed, 1 insertion(+), 2 deletions(-)

diff --git a/conf/modules.config b/conf/modules.config
index 19cfef7..5c5de54 100644
--- a/conf/modules.config
+++ b/conf/modules.config
@@ -256,7 +256,7 @@ process {
 
     withName: CENTRIFUGE_KREPORT {
         ext.args = { "${meta.db_params}" }
-        ext.prefix = { "${meta.id}" }
+        ext.prefix = params.perform_runmerging ? { "${meta.id}-${meta.db_name}" } : { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
         publishDir = [
             path: { "${params.outdir}/centrifuge/${meta.db_name}" },
             mode: params.publish_dir_mode,
diff --git a/nextflow.config b/nextflow.config
index 61b4905..43aaae8 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -98,7 +98,6 @@ params {
 
     // centrifuge
     run_centrifuge             = false
-    centrifuge_kreport         = false
     centrifuge_save_unaligned  = false
     centrifuge_save_aligned    = false
     centrifuge_sam_format      = false