bcftools的安装问题运维qq43206685的博客-

#这是我的第一个博客，可能不太好看，仅作为个人学习记录，若有问题，欢迎各位与我交流并指导。

##安装需要sudo命令，如果apt-get不能下载，可使用yum -y，安装步骤可参考其他人的博客，安装过程比较简单。但我遇到小问题，是缺少liblzma-dev，安装liblzma-dev方法如下

sudo apt-get update -y sudo apt-get install -y liblzma-dev 

#得到以下结果

Loaded plugins: fastestmirror, langpacks Loading mirror speeds from cached hostfile  * base: mirrors.aliyun.com  * extras: mirrors.aliyun.com  * updates: mirrors.aliyun.com No package liblzma-dev available. Error: Nothing to do 

#在谷歌上找该文件，并下载。经过很多方法安装这个文件后发现没能解决问题。

wget http://mirrors.kernel.org/ubuntu/pool/universe/g/golang-github-remyoudompheng-go-liblzma/golang-github-remyoudompheng-go-liblzma-dev_0.0~git20190506.81bf2d4-2_all.deb 

#得到golang-github-remyoudompheng-go-liblzma-dev_0.0~git20190506.81bf2d4-2_all.deb文件。这又得学习deb文件的安装。百度有人推荐dpkg -i 文件名 的方法安装deb文件，谁知学校的主机没有这个命令，我恨！

sudo: dpkg: command not found 

#查到原因应该是学校用的系统的版本问题，需要包支撑。需要找dpkg包，没想到这个包还是deb。谷歌上的这个老外回答的问题把我绕我回来了，

wget http://ftp.us.debian.org/debian/pool/main/d/dpkg/dpkg_1.19.7_amd64.deb~~ 

解决方法（缺啥补啥）

#尝试很多方法，这个问题产生原因是bcftools版本更新了（目前是1.10.2），需要更多依赖包。废话少说，直接上代码。我的主机是红帽版，这个方法适合红帽解决该问题。

 yum install xz-devel 

#再安装一次估计能行，这些包是解析文件所用。再次安装，代码如下

[root@localhost bcftools-1.10.2]# ./configure --prefix=/home/xuchang/software/bcftools-1.10.2/bcftools1.10.2 [root@localhost bcftools-1.10.2]# make [root@localhost bcftools-1.10.2]# make install [root@localhost bcftools-1.10.2]# export PATH=/home/xuchang/software/bcftools-1.10.2/bcftools1.10.2/bin:$PATH [root@localhost bcftools-1.10.2]# source ~/.bashrc [root@localhost bcftools-1.10.2]# bcftools  Program: bcftools (Tools for variant calling and manipulating VCFs and BCFs) Version: 1.10.2 (using htslib 1.10.2)  Usage:   bcftools [--version|--version-only] [--help] <command> <argument>  Commands: -- Indexing     index        index VCF/BCF files   -- VCF/BCF manipulation     annotate     annotate and edit VCF/BCF files     concat       concatenate VCF/BCF files from the same set of samples     convert      convert VCF/BCF files to different formats and back     isec         intersections of VCF/BCF files     merge        merge VCF/BCF files files from non-overlapping sample sets     norm         left-align and normalize indels     plugin       user-defined plugins     query        transform VCF/BCF into user-defined formats     reheader     modify VCF/BCF header, change sample names     sort         sort VCF/BCF file     view         VCF/BCF conversion, view, subset and filter VCF/BCF files   -- VCF/BCF analysis     call         SNP/indel calling     consensus    create consensus sequence by applying VCF variants     cnv          HMM CNV calling     csq          call variation consequences     filter       filter VCF/BCF files using fixed thresholds     gtcheck      check sample concordance, detect sample swaps and contamination     mpileup      multi-way pileup producing genotype likelihoods     roh          identify runs of autozygosity (HMM)     stats        produce VCF/BCF stats   Most commands accept VCF, bgzipped VCF, and BCF with the file type detected  automatically even when streaming from a pipe. Indexed VCF and BCF will work  in all situations. Un-indexed VCF and BCF and streams will work in most but  not all situations. 

喜大奔普。弄了近8小时，我恨。
额外学习，这位大佬教咱认识bashrc。bashrc是bash recode吗？
链接: https://www.cnblogs.com/probemark/p/5886766.html.