Zhihui
5 years ago
2 changed files with 3 additions and 7 deletions
+ 2
- 2
tasks/fastp.wdl
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| File read2 | File read2 | ||||
| String adapter_sequence | String adapter_sequence | ||||
| String adapter_sequence_r2 | String adapter_sequence_r2 | ||||
| String docker | |||||
| String cluster | |||||
| String fastp_docker | |||||
| String fastp_cluster | |||||
| String umi_loc | String umi_loc | ||||
| Int trim_front1 | Int trim_front1 | ||||
| Int trim_tail1 | Int trim_tail1 |
+ 1
- 5
workflow.wdl
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| import "./tasks/fastp.wdl" as fastp | import "./tasks/fastp.wdl" as fastp | ||||
| workflow {{ project_name }} { | |||||
| workflow {{ project_name }} { | |||||
| File inputSamplesFile | File inputSamplesFile | ||||
| Array[Array[File]] inputSamples = read_tsv(inputSamplesFile) | Array[Array[File]] inputSamples = read_tsv(inputSamplesFile) | ||||
| scatter (quartet in inputSamples){ | scatter (quartet in inputSamples){ | ||||
| call fastp.fastp as fastp { | call fastp.fastp as fastp { | ||||
| input: | input: | ||||
| sample_id=quartet[2], | sample_id=quartet[2], |
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