code polish

nf-core · Jan 28, 2025 · 84f7a66 · 84f7a66
1 parent ac66238
commit 84f7a66
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Showing 2 changed files with 6 additions and 7 deletions.
diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -578,18 +578,18 @@
                     "description": "Download annotation cache.",
                     "help_text": "Set this parameter, if you wish to download annotation cache.\nUsing this parameter will download cache even if --snpeff_cache and --vep_cache are provided."
                 },
-                "ascat_genome": {
-                    "type": "string",
-                    "description": "ASCAT genome.",
-                    "help_text": "Must be set to run ASCAT, either hg19 or hg38.\n\nIf you use AWS iGenomes or nf-core/references, this has already been set for you appropriately.",
-                    "enum": ["hg19", "hg38"]
-                },
                 "ascat_alleles": {
                     "type": "string",
                     "fa_icon": "fas fa-file",
                     "description": "Path to ASCAT allele zip file.",
                     "help_text": "If you use AWS iGenomes or nf-core/references, this has already been set for you appropriately."
                 },
+                "ascat_genome": {
+                    "type": "string",
+                    "description": "ASCAT genome.",
+                    "help_text": "Must be set to run ASCAT, either hg19 or hg38.\n\nIf you use AWS iGenomes or nf-core/references, this has already been set for you appropriately.",
+                    "enum": ["hg19", "hg38"]
+                },
                 "ascat_loci": {
                     "type": "string",
                     "fa_icon": "fas fa-file",

diff --git a/subworkflows/local/vcf_annotate_all/main.nf b/subworkflows/local/vcf_annotate_all/main.nf
@@ -37,7 +37,6 @@ workflow VCF_ANNOTATE_ALL {
         versions = versions.mix(VCF_ANNOTATE_BCFTOOLS.out.versions)
     }
 
-
     if (tools.split(',').contains('merge') || tools.split(',').contains('snpeff')) {
         VCF_ANNOTATE_SNPEFF(vcf, snpeff_db.map { _meta, snpeff_db_ -> snpeff_db_ }, snpeff_cache)
-Original file line number
+Diff line change
@@ Expand Up / @@ -37,7 +37,6 @@ workflow VCF_ANNOTATE_ALL { @@
             versions = versions.mix(VCF_ANNOTATE_BCFTOOLS.out.versions)
         }
         if (tools.split(',').contains('merge') || tools.split(',').contains('snpeff')) {
             VCF_ANNOTATE_SNPEFF(vcf, snpeff_db.map { _meta, snpeff_db_ -> snpeff_db_ }, snpeff_cache)
@@ Expand Down @@