publish guppy bams

dhslab · Mar 24, 2023 · e5c7c6f · e5c7c6f
1 parent 3b5d59e
commit e5c7c6f
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Showing 2 changed files with 4 additions and 2 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -62,7 +62,9 @@ process {
 
     withName: SAMTOOLS_MERGE {
         publishDir = [
-            enabled: false
+            path: { "${params.outdir}/samples/${meta.sample}/guppy_aligner/" },
+            pattern:  "*.{bam,bai}",
+            mode: params.publish_dir_mode
             ]
     }
 

diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -10,7 +10,7 @@
             "type": "object",
             "fa_icon": "fas fa-terminal",
             "description": "Define where the pipeline should find input data and save output data.",
-            "required": ["outdir"],
+            "required": ["input", "outdir"],
             "properties": {
                 "input": {
                     "type": "string",