From 835bc23b4feadfae00c0770bacf468b4f92ea966 Mon Sep 17 00:00:00 2001 From: Peter Amstutz <peter.amstutz@curii.com> Date: Fri, 8 Nov 2024 13:25:47 -0500 Subject: [PATCH] Improve guidance on WGS a bit. Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> --- WGS-processing/cwl/wgs-processing-wf.cwl | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/WGS-processing/cwl/wgs-processing-wf.cwl b/WGS-processing/cwl/wgs-processing-wf.cwl index ad88e6a..3a96f44 100644 --- a/WGS-processing/cwl/wgs-processing-wf.cwl +++ b/WGS-processing/cwl/wgs-processing-wf.cwl @@ -7,10 +7,10 @@ doc: | alignment, and variant calling, returning GVCFs and accompanying clinvar variant reports.</p> - <p>The main parameter is <i>fastqdir</i>, which takes a directory - containing paired FASTQ files (suffixed with _1 and _2) to be - processed. The workflow scatters over the samples to process them - in parallel.</p> + <p>The primary input parameter is the <b>Directory of paired FASTQ + files</b>, which should contain paired FASTQ files (suffixed with _1 + and _2) to be processed. The workflow scatters over the samples to + process them in parallel.</p> <p>The remaining parameters are reference data used by various tools in the pipeline.</p> @@ -84,7 +84,7 @@ outputs: type: array items: type: array - items: File + items: File outputSource: bwamem-gatk-report/qc-html format: edam:format_2331 # HTML label: FASTQ quality reports produced by fastqc -- 2.30.2