@@ -0,0 +1,6 @@ | |||
{ | |||
"{{ project_name }}.cluster_config": "OnDemand bcs.a2.large img-ubuntu-vpc", | |||
"{{ project_name }}.tar_file": "{{ tar_file }}", | |||
"{{ project_name }}.disk_size": "200", | |||
"{{ project_name }}.docker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/high_confidence_call_manuscript:v1.4" | |||
} |
@@ -0,0 +1,24 @@ | |||
task untar { | |||
File tar_file | |||
String docker | |||
String cluster_config | |||
String disk_size | |||
command <<< | |||
nt=$(nproc) | |||
tar -zxvf ${tar_file} | |||
>>> | |||
runtime { | |||
docker:docker | |||
cluster: cluster_config | |||
systemDisk: "cloud_ssd 40" | |||
dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/" | |||
} | |||
output { | |||
Array[File] fastq_file = glob("*.fastq.gz") | |||
} | |||
} |
@@ -0,0 +1,17 @@ | |||
import "./tasks/untar.wdl" as untar | |||
workflow {{ project_name }} { | |||
File tar_file | |||
String docker | |||
String cluster_config | |||
String disk_size | |||
call untar.untar as untar { | |||
input: | |||
tar_file=tar_file, | |||
docker=docker, | |||
cluster_config=cluster_config, | |||
disk_size=disk_size | |||
} | |||
} |