removed kraken2 output from multiqc

ctuni · ctuni · commit 75a8e33c79eb · 2024-10-28T14:59:39.000+01:00
diff --git a/workflows/seqinspector.nf b/workflows/seqinspector.nf
@@ -39,7 +39,7 @@ workflow SEQINSPECTOR {
     FASTQC (
         ch_samplesheet
     )
-    ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip.collect{it[1]}.ifEmpty([]))
+    ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip)
     ch_versions = ch_versions.mix(FASTQC.out.versions.first())
 
     //
@@ -48,7 +48,7 @@ workflow SEQINSPECTOR {
     PHYLOGENETIC_QC (
         ch_samplesheet
     )
-    ch_multiqc_files = ch_multiqc_files.mix(PHYLOGENETIC_QC.out.mqc.collect{it[1]}.ifEmpty([]))
+    //ch_multiqc_files = ch_multiqc_files.mix(PHYLOGENETIC_QC.out.mqc.collect{it[1]}.ifEmpty([]))
     ch_versions = ch_versions.mix(PHYLOGENETIC_QC.out.versions)
 
 

Original file line number	Diff line number	Diff line change
`@@ -39,7 +39,7 @@ workflow SEQINSPECTOR {`
`39`	`39`	`FASTQC (`
`40`	`40`	`ch_samplesheet`
`41`	`41`	`)`
`42`		`- ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip.collect{it[1]}.ifEmpty([]))`
	`42`	`+ ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip)`
`43`	`43`	`ch_versions = ch_versions.mix(FASTQC.out.versions.first())`
`44`	`44`
`45`	`45`	`//`
`@@ -48,7 +48,7 @@ workflow SEQINSPECTOR {`
`48`	`48`	`PHYLOGENETIC_QC (`
`49`	`49`	`ch_samplesheet`
`50`	`50`	`)`
`51`		`- ch_multiqc_files = ch_multiqc_files.mix(PHYLOGENETIC_QC.out.mqc.collect{it[1]}.ifEmpty([]))`
	`51`	`+ //ch_multiqc_files = ch_multiqc_files.mix(PHYLOGENETIC_QC.out.mqc.collect{it[1]}.ifEmpty([]))`
`52`	`52`	`ch_versions = ch_versions.mix(PHYLOGENETIC_QC.out.versions)`
`53`	`53`
`54`	`54`