bootstraps - boot

nf-core · May 2, 2024 · c031263 · c031263
1 parent f27f9f9
commit c031263
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Showing 3 changed files with 3 additions and 2 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -43,7 +43,7 @@ params {
     multiqc_config             = null
     max_multiqc_email_size     = '25.MB'
     skip_freyja                = false
-    skip_freyja_bootstraps     = false
+    skip_freyja_boot           = false
     freyja_repeats             = 100
     freyja_depthcutoff         = null
     freyja_db_name             = 'freyja_db'

diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -265,7 +265,7 @@
                     "fa_icon": "fas fa-forward",
                     "description": "Skip freyja deep SARS-CoV-2 variant analysis using a depth weighted approach."
                 },
-                "skip_freyja_bootstraps": {
+                "skip_freyja_boot": {
                     "type": "boolean",
                     "fa_icon": "fas fa-forward",
                     "description": "Skip the bootstrapping  module of Freyja"

diff --git a/workflows/illumina.nf b/workflows/illumina.nf
@@ -472,6 +472,7 @@ workflow ILLUMINA {
         BAM_VARIANT_DEMIX_BOOT_FREYJA(
             ch_bam,
             PREPARE_GENOME.out.fasta,
+            params.skip_freyja_boot,
             params.freyja_repeats,
             params.freyja_db_name,
             params.freyja_barcodes,