项目示例

/share/nas1/yuj/project/2022/GP-20221130-5342_20221123

配置文件

$ cp /share/nas1/yuj/project/2022/GP-20221130-5342_20221123/SR/virusdectect-seq_config.yaml ./
# 注意文件格式 接头序列

主流程

# /share/nas6/pub/pipline/rna-seq/small-rna-virus/virusdectect-seq.pl 原版
# /share/nas1/yuj/pipline/rna-seq/small-rna-virus/virusdectect-seq.pl 取消去除接头引物这一步

$ perl /share/nas1/yuj/pipline/rna-seq/small-rna-virus/virusdectect-seq.pl -i virusdectect-seq_config.yaml -o analysis # 输出目录后面不要加/,有问题

PS: 如果遇到Permission denied,就手动创建 analysis 目录

报告

$ cp /share/nas1/yuj/project/GP-20221130-5342_20221123/SR/VirusDetect.cfg ./ # 修改
$ perl /share/nas1/yuj/pipline/rna-seq/small-rna-virus/html_report/VirusDetect_xml.pl -id analysis -cfg VirusDetect.cfg