publish path redirection in modules

Signed-off-by: Dr Marco Claudio De La Pierre <[email protected]>
nextflow-io · May 8, 2024 · 4ca46a3 · 4ca46a3
1 parent 2d653c3
commit 4ca46a3
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Showing 3 changed files with 4 additions and 10 deletions.
diff --git a/main.nf b/main.nf
@@ -25,6 +25,8 @@
  */
 nextflow.enable.dsl = 2
 
+nextflow.preview.output = true
+
 /*
  * Default pipeline parameters. They can be overriden on the command line eg.
  * given `params.foo` specify on the run command line `--foo some_value`.
@@ -66,12 +68,4 @@ workflow.onComplete {
 output {
   directory params.outdir
   mode 'copy'
-
-  'fastqc' {
-    path '.'
-  }
-
-  'multiqc' {
-    path '.'
-  }
 }
diff --git a/modules/fastqc/main.nf b/modules/fastqc/main.nf
@@ -10,7 +10,7 @@ process FASTQC {
     path "fastqc_${sample_id}_logs", emit: logs
 
     publish:
-    logs >> 'fastqc'
+    logs >> '.'
 
     script:
     """

diff --git a/modules/multiqc/main.nf b/modules/multiqc/main.nf
@@ -10,7 +10,7 @@ process MULTIQC {
     path('multiqc_report.html'), emit: report
 
     publish:
-    report >> 'multiqc'
+    report >> '.'
 
     script:
     """