From 26f3fbf03e757e94fe7437919b97c1a3a7cad638 Mon Sep 17 00:00:00 2001
From: ryanjameskennedy <ryanjameskennedy@icloud.com>
Date: Mon, 11 Nov 2024 19:44:24 +0100
Subject: [PATCH] Update emmtyper in base config

---
 configs/nextflow.base.config | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/configs/nextflow.base.config b/configs/nextflow.base.config
index 42444b01..8d518180 100644
--- a/configs/nextflow.base.config
+++ b/configs/nextflow.base.config
@@ -216,7 +216,7 @@ process {
 		ext.args_ska = {"${params.outdir}/${params.speciesDir}/ska"}
 	}
 	withName: emmtyper {
-		container = "emmtyper.sif"
+		container = "${params.containerDir}/emmtyper.sif"
 		publishDir = [ path: "${params.outdir}/${params.speciesDir}/emmtyper", mode: 'copy', overwrite: true ]
 	}
 	withName: export_to_cdm {