why is multiqc not working?

ctuni · ctuni · commit d430a27da94e · 2024-10-28T14:47:32.000+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)
+    ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip.collect{it[1]}.ifEmpty([]))
     ch_versions = ch_versions.mix(FASTQC.out.versions.first())
 
     //
@@ -48,7 +48,6 @@ workflow SEQINSPECTOR {
     PHYLOGENETIC_QC (
         ch_samplesheet
     )
-
     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)`
	`42`	`+ ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip.collect{it[1]}.ifEmpty([]))`
`43`	`43`	`ch_versions = ch_versions.mix(FASTQC.out.versions.first())`
`44`	`44`
`45`	`45`	`//`
`@@ -48,7 +48,6 @@ workflow SEQINSPECTOR {`
`48`	`48`	`PHYLOGENETIC_QC (`
`49`	`49`	`ch_samplesheet`
`50`	`50`	`)`
`51`		`-`
`52`	`51`	`ch_multiqc_files = ch_multiqc_files.mix(PHYLOGENETIC_QC.out.mqc.collect{it[1]}.ifEmpty([]))`
`53`	`52`	`ch_versions = ch_versions.mix(PHYLOGENETIC_QC.out.versions)`
`54`	`53`