Merge pull request #1420 from MatthiasZepper/vcfs_concat_ext_args

Make -a a default argument for bcftools concat
nf-core · Feb 27, 2024 · 0fa5bcb · 0fa5bcb
2 parents 12d0867 + 4fa3628
commit 0fa5bcb
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/conf/modules/post_variant_calling.config b/conf/modules/post_variant_calling.config
@@ -17,6 +17,7 @@
 process {
 
     withName: 'GERMLINE_VCFS_CONCAT'{
+        ext.args   = { "-a" }
         ext.when   = { params.concatenate_vcfs }
         publishDir = [
             //specify to avoid publishing, overwritten otherwise