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fix bug

master
YaqingLiu 5 年前
父节点
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d235176f91
共有 2 个文件被更改,包括 4 次插入3 次删除
  1. +1
    -1
      defaults
  2. +3
    -2
      tasks/bamdst.wdl

+ 1
- 1
defaults 查看文件

{ {
"docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/bamdst:1.0.9", "docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/bamdst:1.0.9",
"disk_size": "200", "disk_size": "200",
"cluster_config": "OnDemand bcs.a2.large img-ubuntu-vpc"
"cluster_config": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc"
} }

+ 3
- 2
tasks/bamdst.wdl 查看文件

command <<< command <<<
set -o pipefail set -o pipefail
set -e set -e

bamdst -p ${bed} -o ./ ${bam}
mkdir -p /cromwell_root/tmp/bamdst
bamdst -p ${bed} -o /cromwell_root/tmp/bamdst ${bam}
cd /cromwell_root/tmp/bamdst
cp chromosomes.report ${sample}_chromosomes.report cp chromosomes.report ${sample}_chromosomes.report
cp coverage.report ${sample}_coverage.report cp coverage.report ${sample}_coverage.report
cp depth_distribution.plot ${sample}_depth_distribution.plot cp depth_distribution.plot ${sample}_depth_distribution.plot

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