1 更新CPAN

>perl -MCPAN -e shell
cpan>install Bundle::CPAN
cpan>q

修改CPAN源

perl -p -i -e "s#urllist.*#urllist' => [q[http://mirrors.aliyun.com/CPAN/], q[http://mirrors.163.com/CPAN/]],#" /usr/share/perl5/CPAN/Config.pm

2 安装/更新 Module::Build，并设置为默认的安装工具

>cpan
cpan>install Module::Build
cpan>o conf prefer_installer MB
cpan>o conf commit
cpan>q

3 安装expat library

>cpan
cpan>o conf makepl_arg "EXPATLIBPATH=/non-standard/lib EXPATINCPATH=/non-standard/include"
cpan>o conf commit

4 使用最简易的方法安装bioperl

1.到http://www.bioperl.org/wiki/Getting_BioPerl下载最新的源码包

$ wget -c http://bioperl.org/DIST/BioPerl-1.6.1.tar.bz2

2.解压缩文件，并改变目录到解压缩的文件夹中

$ tar jxvf BioPerl-1.6.1.tar.bz2
$ cd BioPerl-1.6.1

3.安装bioperl

>perl Build.PL
>./Build test
>./Build install （需要在perl5/site_perl/source中有写权限）

5 使用CPAN shell来安装BioPerl

1.打开cpan

>perl -MCPAN -e shell
>cpan

2.查看安装的BioPerl版本很文件

cpan>d /bioperl/

3. 安装BioPerl

cpan>install C/CJ/CJFIELDS/BioPerl-1.6.1.tar.gz
cpan>force install C/CJ/CJFIELDS/BioPerl-1.6.1.tar.gz （强制安装）

6 编译安装

perl Makefile.PL # makes the system specific makefile
make # builds all the libaries
make test # runs a short test
make install # installs the package correctly.