(47e00e34) · Commits · Chaos / Cutandrun

workflows/cutandrun.nf

+9 −9

Original line number	Diff line number	Diff line
		@@ -748,14 +748,6 @@ workflow CUTANDRUN {
		//SAMTOOLS_CUSTOMVIEW.out.tsv \| view
		}

		/*
		* CHANNEL: Remove IgG from bigwig channel
		*/
		UCSC_BEDGRAPHTOBIGWIG.out.bigwig
		.filter { it[0].group != "igg" }
		.set { ch_bigwig_no_igg }
		//ch_bigwig_no_igg \| view

		if(params.run_reporting) {
		if(params.run_igv) {
		/*
		@@ -770,7 +762,7 @@ workflow CUTANDRUN {
		//ch_software_versions = ch_software_versions.mix(IGV_SESSION.out.versions)
		}

		if (params.run_deep_tools) {
		if (params.run_deep_tools && params.run_peak_calling) {
		/*
		* MODULE: Extract max signal from peak beds
		*/
		@@ -788,6 +780,14 @@ workflow CUTANDRUN {
		.set { ch_peaks_bed_id }
		//ch_peaks_bed_id \| view

		/*
		* CHANNEL: Remove IgG from bigwig channel
		*/
		UCSC_BEDGRAPHTOBIGWIG.out.bigwig
		.filter { it[0].group != "igg" }
		.set { ch_bigwig_no_igg }
		//ch_bigwig_no_igg \| view

		/*
		* CHANNEL: Join beds and bigwigs on id
		*/