revert to old multiqc module for now

grunwaldlab · Oct 30, 2024 · b7b1997 · b7b1997
1 parent d6697bc
commit b7b1997
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Showing 3 changed files with 13 additions and 22 deletions.
diff --git a/modules/nf-core/multiqc/main.nf b/modules/nf-core/multiqc/main.nf
diff --git a/subworkflows/local/genome_assembly.nf b/subworkflows/local/genome_assembly.nf
@@ -61,7 +61,7 @@ workflow GENOME_ASSEMBLY {
 
     FLYE_NANOPORE (
         filtered_input.nanopore_prokaryote.mix(filtered_input.nanopore_eukaryote),
-        "--nano-hq"
+        "--nano-raw"
     )
 
     FLYE_PACBIO (

diff --git a/workflows/pathogensurveillance.nf b/workflows/pathogensurveillance.nf
@@ -131,9 +131,7 @@ workflow PATHOGENSURVEILLANCE {
         multiqc_files,
         multiqc_config.collect(sort: true).ifEmpty([]),
         multiqc_custom_config.collect(sort: true).ifEmpty([]),
-        multiqc_logo.collect(sort: true).ifEmpty([]),
-        [],
-        []
+        multiqc_logo.collect(sort: true).ifEmpty([])
     )
     versions = versions.mix(MULTIQC.out.versions)