1 changed files with 19 additions and 2 deletions
+ 19
- 2
workflow.wdl
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| import "./tasks/fastp.wdl" as fastp | import "./tasks/fastp.wdl" as fastp | ||||
| import "./tasks/fastqscreen.wdl" as fastqscreen | |||||
| workflow {{ project_name }} { | workflow {{ project_name }} { | ||||
| File in1 | File in1 | ||||
| File in2 | File in2 | ||||
| String sample_id | String sample_id | ||||
| String docker | |||||
| File screen_ref_dir | |||||
| File fastq_screen_conf | |||||
| String docker_fastp | |||||
| String docker_fastqscreen | |||||
| String cluster_config | String cluster_config | ||||
| String disk_size | String disk_size | ||||
| in1=in1, | in1=in1, | ||||
| in2=in2, | in2=in2, | ||||
| sample_id=sample_id, | sample_id=sample_id, | ||||
| docker=docker, | |||||
| docker=docker_fastp, | |||||
| cluster_config=cluster_config, | |||||
| disk_size=disk_size | |||||
| } | |||||
| call fastqscreen.fastq_screen as fastq_screen{ | |||||
| input: | |||||
| read1=in1, | |||||
| read2=in2, | |||||
| sample=sample_id, | |||||
| docker=docker_fastqscreen, | |||||
| cluster_config=cluster_config, | cluster_config=cluster_config, | ||||
| disk_size=disk_size | disk_size=disk_size | ||||
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