1 # Copyright (C) The Lightning Authors. All rights reserved.
3 # SPDX-License-Identifier: AGPL-3.0
6 arv: "http://arvados.org/cwl#"
9 label: Scatter to convert CGIVARs to VCFs and BEDs
11 SubworkflowFeatureRequirement: {}
12 ScatterFeatureRequirement: {}
15 dockerPull: cgivar2vcfbed
19 label: Input directory of CGIVARs
22 label: CRR reference used for cgatools
25 label: Script invoking cgatools
28 location: cgatools-mkvcf.sh
31 label: Script to fix VCF
40 outputSource: cgivar2vcfbed-wf/vcfgz
44 outputSource: cgivar2vcfbed-wf/bed
51 out: [cgivars, samples]
53 run: cgivar2vcfbed-wf.cwl
54 scatter: [cgivar, sample]
55 scatterMethod: dotproduct
57 cgivar: getfiles/cgivars
58 sample: getfiles/samples