chore: reorder for readability

CCBR · Oct 4, 2023 · f0f9656 · f0f9656
1 parent fd9cae2
commit f0f9656
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Showing 3 changed files with 3 additions and 9 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -24,10 +24,4 @@ process {
             '-b file:/opt2/TruSeq_and_nextera_adapters.consolidated.fa'
         ].join(' ').trim()
     }
-    withName: 'WRITE_GENOME_CONFIG' {
-        publishDir = [
-            path: { "${params.outdir}/genome" },
-            mode: "copy"
-        ]
-    }
 }
diff --git a/conf/test.config b/conf/test.config
@@ -5,13 +5,13 @@ params {
     outdir = 'results/test'
     input = 'assets/samplesheet_test.csv' // adapted from https://github.com/nf-core/test-datasets/blob/chipseq/samplesheet/v2.0/samplesheet_test.csv
 
+    genome = 'custom_genome'
     read_length = 50
 
     // Genome references
     genome_fasta = 'https://raw.githubusercontent.com/nf-core/test-datasets/atacseq/reference/genome.fa'
     genes_gtf   = 'https://raw.githubusercontent.com/nf-core/test-datasets/atacseq/reference/genes.gtf'
     blacklist = '/data/CCBR_Pipeliner/db/PipeDB/Indices/hg38_basic/indexes/hg38.blacklist_v3.chrM.chr_rDNA.fa'
-    genome = 'sacCer3'
     save_reference = true // https://github.com/nf-core/chipseq/blob/51eba00b32885c4d0bec60db3cb0a45eb61e34c5/subworkflows/local/prepare_genome.nf#L47-L51
 
     max_cpus = 32           // for interactive node on biowulf

diff --git a/conf/test_paired.config b/conf/test_paired.config
@@ -3,9 +3,9 @@ params {
     config_profile_description = 'Minimal test dataset to check paired & single end handling'
 
     outdir = 'results/test_paired'
-
     input = 'assets/samplesheet_test_paired.csv' // adapted from 'https://raw.githubusercontent.com/nf-core/test-datasets/chipseq/samplesheet/v2.0/samplesheet_test.csv'
-    genome = 'sacCer3'
+
+    genome = 'custom_genome'
     read_length = 50
 
     // Genome references