xpclr 软件不能运行

在你们服务器上运行xpclr 软件的时候,找不到这个软件,相关的镜像已经下载。

[us002@omicsclass-a02  12:28:18 ~/work/pop_cucu_demo/05.select_sweep/xpclr]$cd  $workdir/05.select_sweep
mkdir xpclr
cd xpclr


## xpclr软件每次只能运行1个染色体
## 原始的XPCLR分析:https://www.omicsclass.com/article/1334

#python 版本的xpclr,结果说明见:  https://github.com/hardingnj/xpclr
for i in Chr1 Chr2 Chr3 Chr4 Chr5 Chr6 Chr7;do  #不同的染色体分别计算
    xpclr --format vcf --input $workdir/00.filter/clean.vcf.gz \
        --samplesA ../wild_popid.txt --samplesB ../cultivated_popid.txt \
        --out ./$i.xpclr --chr $i \
        --size $window  --step $step --maxsnps 200 --minsnps 5
done
mkdir: cannot create directory ‘xpclr’: File exists
-bash: xpclr: command not found
-bash: xpclr: command not found
-bash: xpclr: command not found
-bash: xpclr: command not found
-bash: xpclr: command not found
-bash: xpclr: command not found
-bash: xpclr: command not found
[us002@omicsclass-a02  12:28:21 ~/work/pop_cucu_demo/05.select_sweep/xpclr]$docker images
REPOSITORY                          TAG         IMAGE ID      CREATED        SIZE
localhost/omicsclass/pop-evol-gwas  v2.0        efcdf45e89d0  7 months ago   8.34 GB
localhost/omicsclass/reseq          v2.0        1d6dd5e4e859  11 months ago  14 GB
localhost/omicsclass/bsaseq         v1.0        d9592d14c885  3 years ago    4.21 GB
[us002@omicsclass-a02  12:28:46 ~/work/pop_cucu_demo/05.select_sweep/xpclr]$docker run
Error: requires at least 1 arg(s), only received 0
[us002@omicsclass-a02  12:33:43 ~/work/pop_cucu_demo/05.select_sweep/xpclr]$

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1 个回答

omicsgene - 生物信息
擅长:重测序,遗传进化,转录组,GWAS

请在docker镜像里面分析数据,按照课程里面的;软件在docker镜像里面;

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