README.md Author: Qingwang Chen; Chenglin Liu

Email: qwch20@fudan.edu.cn

Last Updates: 17/01/2022

Brief Introduction For RNA-seq data, from bams to AS Information files.

Requirements choppy Ali-Cloud Linux

激活choppy环境

$ source activate choppy (open-choppy-env)

第一次安装

$ choppy install chenqingwang/fastp_suppa2

非第一次安装

$ choppy install chenqingwang/fastp_suppa2 -f

查询已安装APP

$ choppy apps Quick Start

准备 samples.csv 文件

$ choppy samples chenqingwang/fastp_suppa2-latest > samples.csv

准备无默认参数的samples.csv 文件

choppy samples --no-default chenqingwang/fastp_suppa2-latest > samples.csv

提交任务

$ choppy batch chenqingwang/fastp_suppa2-latest samples.csv -p Your_project_name -l Your_label

查询任务运行状况

$ choppy query -L Your_label | grep “status”

查询失败任务

$ choppy search -s Failed -p Your_project_name -u chenqingwang --short-format

结果文件地址

$ oss://choppy-cromwell-result/test-choppy/Your_project_name/