Fix: Change folder hierarchy in group and normalize modules

tax_level will no longer be used in the folder hierarchy
segrelab · Nov 12, 2021 · ebee568 · ebee568
1 parent b2330ba
commit ebee568
Show file tree

Hide file tree

Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/micone/pipelines/modules/otu_processing/export/biom2tsv.nf b/micone/pipelines/modules/otu_processing/export/biom2tsv.nf
@@ -3,7 +3,7 @@ include { getHierarchy; updateMeta } from '../../../functions/functions.nf'
 process biom2tsv {
     label 'micone'
     tag "${new_meta.id}"
-    publishDir "${params.output_dir}/${f[0]}/export/${f[1]}/${directory}/${tax_level}/${new_meta.id}",
+    publishDir "${params.output_dir}/${f[0]}/export/${f[1]}/${directory}/${new_meta.id}",
         mode: 'copy',
         overwrite: true
     input:

diff --git a/micone/pipelines/modules/otu_processing/transform/group.nf b/micone/pipelines/modules/otu_processing/transform/group.nf
@@ -3,7 +3,7 @@ include { getHierarchy; updateMeta } from '../../../functions/functions.nf'
 process group {
     label 'micone'
     tag "${meta.id}:${tax_level}"
-    publishDir "${params.output_dir}/${f[0]}/transform/${f[1]}/${directory}/${tax_level}/${new_meta.id}",
+    publishDir "${params.output_dir}/${f[0]}/transform/${f[1]}/${directory}/${new_meta.id}",
         mode: 'copy',
         overwrite: true
     input: