#!/usr/bin/env cwl-runner
# Copyright (C) The Arvados Authors. All rights reserved.
#
# SPDX-License-Identifier: CC-BY-SA-3.0

# Example input file providing both content addresses and UUIDs.  The
# collections identified by 'collectionUUID' will be checked that the
# current content of the collection record matches the content address
# in the 'location' field.

$namespaces:
  arv: 'http://arvados.org/cwl#'

cwl:tool: bwa-mem.cwl
reference:
  class: File
  location: keep:2463fa9efeb75e099685528b3b9071e0+438/19.fasta.bwt
  arv:collectionUUID: jutro-4zz18-tv416l321i4r01e
read_p1:
  class: File
  location: keep:ae480c5099b81e17267b7445e35b4bc7+180/HWI-ST1027_129_D0THKACXX.1_1.fastq
  arv:collectionUUID: jutro-4zz18-8k5hsvee0izv2g3
read_p2:
  class: File
  location: keep:ae480c5099b81e17267b7445e35b4bc7+180/HWI-ST1027_129_D0THKACXX.1_2.fastq
  arv:collectionUUID: jutro-4zz18-8k5hsvee0izv2g3
group_id: arvados_tutorial
sample_id: HWI-ST1027_129
PL: illumina