pfastq-dump 软件的安装以及测试

 

pfastq-dump 软件的安装以及测试

001、官网：https://github.com/inutano/pfastq-dump

 

002、下载最新版

wget -c https://github.com/inutano/pfastq-dump/archive/refs/tags/v0.1.6.tar.gz
tar -xzvf pfastq-dump-0.1.6.tar.gz
cd pfastq-dump-0.1.6/bin/
chmod +x pfastq-dump

 

003、调用测试

(base) [b20223040323@admin2 bin]$ ./pfastq-dump

 

004、拆分sra文件测试：

[b20223040323@admin2 test7]$ ls
SRR1770413
[b20223040323@admin2 test7]$ pfastq-dump --threads 8 --gzip --split-files --outdir ./ -s ./SRR1770413
Using sra-stat : 3.0.0
Using "fastq-dump" version 3.0.0
tmpdir: /public/home/b20223040323/test7
outdir: ./
blocks: 1,80406 80407,160812 160813,241218 241219,321624 321625,402030 402031,482436 482437,562842 562843,643253
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80411 spots for ./SRR1770413
Written 80411 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
Read 80406 spots for ./SRR1770413
Written 80406 spots for ./SRR1770413
[b20223040323@admin2 test7]$ ls
SRR1770413  SRR1770413_1.fastq.gz  SRR1770413_2.fastq.gz

 。

 

基础拆分命令：

fastq-dump --gzip --split-files -A sample_name sample_name.lite.1

。