import "./tasks/qualimapBAMqc.wdl" as qualimapBAMqc import "./tasks/multiqc.wdl" as multiqc workflow {{ project_name }} { File inputSamplesFile Array[Array[File]] inputSamples = read_tsv(inputSamplesFile) scatter (sample in inputSamples) { call qualimapBAMqc.qualimapBAMqc as qualimapBAMqc { input: bam=sample[0], bai=sample[1] } } call multiqc.multiqc as multiqc { input: bamqc_zip=qualimapBAMqc.bamqc_zip } }