virsorter db

EBI-Metagenomics · Oct 7, 2024 · e2cd508 · e2cd508
1 parent 4a1eb72
commit e2cd508
Showing 1 changed file with 3 additions and 1 deletion.
diff --git a/modules/local/virsorter2/main.nf b/modules/local/virsorter2/main.nf
@@ -5,6 +5,7 @@ process VIRSORTER2 {
 
     input:
       tuple val(meta), file(fasta), val(contig_number) 
+      path(database) 
 
     when: 
       contig_number.toInteger() > 0 
@@ -14,6 +15,7 @@ process VIRSORTER2 {
 
     script:
       """
-      virsorter run -w virsorter2 -i ${fasta}  -j ${task.cpus} all
+      virsorter config --init-source --db-dir=${database}
+      virsorter run -w virsorter2 -i ${fasta} -j ${task.cpus} all
       """
 }