1 changed files with 2 additions and 4 deletions
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- 4
tasks/fastp.wdl
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| String out2_name = sample_id+'clean_2.fastq.gz' | String out2_name = sample_id+'clean_2.fastq.gz' | ||||
| command <<< | command <<< | ||||
| set -o pipefail | set -o pipefail | ||||
| set -e | |||||
| nt=$(nproc) | |||||
| set -e | |||||
| nt=$(nproc) | |||||
| # basic command | # basic command | ||||
| /opt/conda/bin/fastp \ | /opt/conda/bin/fastp \ | ||||
| --report_title ${report_title} \ | --report_title ${report_title} \ | ||||
| --thread $nt \ | --thread $nt \ | ||||
| --length_required 30 | --length_required 30 | ||||
| >>> | >>> | ||||
| runtime { | runtime { |
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