Rename local STAR module

nf-core · May 3, 2024 · e11a387 · e11a387
1 parent 1419fb9
commit e11a387
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Showing 4 changed files with 8 additions and 8 deletions.
diff --git a/modules/local/star/environment.yml → modules/local/star/align/environment.yml b/modules/local/star/environment.yml → modules/local/star/align/environment.yml
@@ -1,4 +1,4 @@
-name: star
+name: star_align
 channels:
   - conda-forge
   - bioconda

diff --git a/modules/local/star/main.nf → modules/local/star/align/main.nf b/modules/local/star/main.nf → modules/local/star/align/main.nf
@@ -1,4 +1,4 @@
-process STAR {
+process STAR_ALIGN {
     tag "${meta.id}"
     label 'process_high'
 

diff --git a/modules/local/star/meta.yml → modules/local/star/align/meta.yml b/modules/local/star/meta.yml → modules/local/star/align/meta.yml
@@ -1,4 +1,4 @@
-name: star
+name: star_align
 description: An ultrafast universal RNA-seq aligner
 keywords:
   - rna-seq

diff --git a/subworkflows/local/read_alignment_rna/main.nf b/subworkflows/local/read_alignment_rna/main.nf
@@ -8,7 +8,7 @@ import Utils
 include { GATK4_MARKDUPLICATES } from '../../../modules/nf-core/gatk4/markduplicates/main'
 include { SAMBAMBA_MERGE       } from '../../../modules/local/sambamba/merge/main'
 include { SAMTOOLS_SORT        } from '../../../modules/nf-core/samtools/sort/main'
-include { STAR                 } from '../../../modules/local/star/main'
+include { STAR_ALIGN           } from '../../../modules/local/star/align/main'
 
 workflow READ_ALIGNMENT_RNA {
     take:
@@ -55,7 +55,7 @@ workflow READ_ALIGNMENT_RNA {
         }
 
     //
-    // MODULE: STAR
+    // MODULE: STAR alignment
     //
     // Create process input channel
     // channel: [ meta_star, fastq_fwd, fastq_rev ]
@@ -75,19 +75,19 @@ workflow READ_ALIGNMENT_RNA {
         }
 
     // Run process
-    STAR(
+    STAR_ALIGN(
         ch_star_inputs,
         genome_star_index,
     )
 
-    ch_versions = ch_versions.mix(STAR.out.versions)
+    ch_versions = ch_versions.mix(STAR_ALIGN.out.versions)
 
     //
     // MODULE: SAMtools sort
     //
     // Create process input channel
     // channel: [ meta_sort, bam ]
-    ch_sort_inputs = STAR.out.bam
+    ch_sort_inputs = STAR_ALIGN.out.bam
         .map { meta_star, bam ->
             def meta_sort = [
                 *:meta_star,