diff --git a/src/nf_modules/danpos/main.nf b/src/nf_modules/danpos/main.nf index a099b713c2d999d6cdbf38fedd73c88417124677..3f33cd9de0bfb431fe15f3a2c633d7e16d136ebb 100644 --- a/src/nf_modules/danpos/main.nf +++ b/src/nf_modules/danpos/main.nf @@ -74,11 +74,12 @@ awk -v FS='\t' -v OFS='\t' 'FNR > 1 { print \$1, \$2-1, \$3, "Interval_"NR-1, \$ workflow dpos_bw { take: + fasta fastq bw main: dpos_wig(fastq, bigwig2_to_wig2(bw)) - wig_to_bedgraph(dpos_wig.out.wig) + wig_to_bedgraph(fasta, dpos_wig.out.wig) emit: bedgraph = wig_to_bedgraph.out.bedgraph @@ -133,6 +134,7 @@ awk -v FS='\t' -v OFS='\t' 'FNR > 1 { print \$1, \$2-1, \$3, "Interval_"NR-1, \$ workflow dwig_bwvsbw { take: + fasta fastq bw_a bw_b @@ -142,7 +144,7 @@ workflow dwig_bwvsbw { bigwig2_to_wig2(bw_a), bigwig2_to_wig2(bw_b), ) - wig_to_bedgraph(dpos_wigvswig.out.wig) + wig_to_bedgraph(fasta, dpos_wigvswig.out.wig) emit: bedgraph = wig_to_bedgraph.out.bedgraph @@ -254,8 +256,8 @@ workflow dpeak_bw { fastq bw main: - dpeak_wig(fasta, fastq, bigwig2_to_wig2(bw)) - wig2_to_bedgraph2(dpeak_wig.out.wig) + dpeak_wig(fastq, bigwig2_to_wig2(bw)) + wig2_to_bedgraph2(fasta, dpeak_wig.out.wig) emit: bedgraph = wig2_to_bedgraph2.out.bedgraph