diff --git a/src/nf_modules/ucsc/main.nf b/src/nf_modules/ucsc/main.nf index 7eccd022c66376344c18543734b324925595043e..899157f960d515ce58755264c86cbc6cc6bbef7b 100644 --- a/src/nf_modules/ucsc/main.nf +++ b/src/nf_modules/ucsc/main.nf @@ -42,7 +42,7 @@ process bigwig_to_wig { } input: - tuple val(file_id) path(bg) + tuple val(file_id) path(bw) output: tuple val(file_id), path("*.wig"), emit: wig @@ -50,9 +50,9 @@ process bigwig_to_wig { script: """ bigWigToBedGraph ${params.bigwig_to_wig} \ - ${bg} \ + ${bw} \ ${bg.simpleName}.bg -awk '{if(NR>1) {if(\$1!=lastChrom){printf("variableStep chrom=%s\\n",\$1);lastChrom=\$1;}print \$2,\$4}}' ${bg.simpleName}.bg > ${bg.simpleName}.wig +awk '{if(NR>1) {if(\$1!=lastChrom){printf("variableStep chrom=%s\\n",\$1);lastChrom=\$1;}print \$2,\$4}}' ${bw.simpleName}.bg > ${bw.simpleName}.wig """ }