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1.安裝perl包
requires:
! Bit::Vector is not installed
! IO::All is not installed
! Inline::C is not installed
! Perl::Unsafe::Signals is not installed
! Want is not installed
! forks is not installed
! forks::shared is not installed
recommends:
* DBD::Pg is not installed
使用conda批量安裝，將上述Perl包名全部寫入requirements.txt文件中
$ vi requirements.txt
perl-inline-c
perl-perl-unsafe-signals
perl-want
perl-forks
perl-dbd-pg
conda install -c bioconda --file=requirements.txt
2.配置MPI
在OpenMPI官網（https://www.open-mpi.org/）下載合適的opemMPI版本
tar zvxf openmpi-4.1.2.tar.gz
mkdir MPI
cd openmpi-4.1.2
./configure --prefix=/path/MPI/ #寫絕對路徑
3.安裝依賴軟件
3.1 安裝WuBlast或NCBI-BLAST
安裝NCBI-BLAST 2.2.X或更高的版本
下載地址：Index of /blast/executables/blast+/LATEST (nih.gov)
解壓并安裝
vi ~/.bashrc
export PATH=/usr/local/ncbi-blast:$PATH
3.2 安裝SNAP
下載地址：http://korflab.ucdavis.edu/software.html
解壓并安裝
vi ~/.bashrc
export ZOE=/usr/local/snap/Zoe:$PATH
export PATH=/usr/local/snap:$PATH
3.3 安裝RepeatMasker
下載地址：Download Page (repeatmasker.org)
基因組重復序列檢測：RepeatMasker的安裝及使用 - 簡書 (jianshu.com)
Tips：
需要安裝TRF、如果沒有安裝WuBlast則還需安裝RMBlast
在http://www.girinst.org下載Repeat Masker版本的Repbase repeat database, 解壓在RepeatMasker/Libraries目錄下,再執行編譯，因為configure第一步就是檢查數據庫
tar zvxf RepeatMasker-4.1.2-p1.tar.gz
cd RepeatMasker
#準備數據庫
wget https://www.dfam.org/releases/Dfam_3.2/families/Dfam.h5.gz
gunzip Dfam.h5.gz
mv Dfam.h5 /path/RepeatMasker/Libraries
cp RepBaseRepeatMaskerEdition-20181026.tar.gz /path/RepeatMasker/
cd /path/RepeatMasker
tar xzvf RepBaseRepeatMaskerEdition-20181026.tar
rm RepBaseRepeatMaskerEdition-20181026.tar
perl ./configure
vi ~/.bashrc
export PATH=/path/RepeatMasker:$PATH
export LIBDIR=/path/RepeatMasker/Libraries:$LIBDIR
3.4 安裝Exonerate 2.2
下載地址： http://www.ebi.ac.uk/~guy/exonerate
解壓安裝包
./configure -prefix=/usr/local/exonerate
make && make install
vi ~/.bashrc
export PATH=/usr/local/exonerate/bin:$PATH
3.5 安裝AUGUSTUS
下載地址：http://bioinf.uni-greifswald.de/augustus/
Augustus安裝教程 - 簡書 (jianshu.com)
3.5 安裝MAKER
tar zvxf maker-3.01.04.tgz
cd ./maker/src
perl Build.PL
./Build install
~/.bashrc中必須包含:
export ZOE=where_snap_is/Zoe:$PATH
export AUGUSTUS_CONFIG_PATH=where_augustus_is/config:$PATH
vi ~/.bashrc
export PATH=/usr/local/maker/bin:$PATH
運行：
maker [options] <maker_opts> <maker_bopts> <maker_exe>
參考文章：使用Anconda批量安裝Pythony庫（依賴包）的方法_閆小亙的博客-CSDN博客_conda 批量安裝
無sudo/root的情況下怎么安裝OpenMPI_熱愛可抵漫長歲月-CSDN博客
