安装三代组装canu、smartdenovo、wtdbg及矫正软件Racon、Nanopolish的安装

1）三代组装软件

------------------------------------------------------------------canu--------------------------------------------

wget https://github.com/marbl/canu/releases/download/v1.8/canu-1.8.Linux-amd64.tar.xz
tar -Jxf canu-1.8.Linux-amd64.tar.xz
echo 'export PATH=/home/share/biosoft/canu-1.8/Linux-amd64/bin:$PATH' >> ~/.bashrc
source ~/.bashrc

-----------------------------------------------------------smartdenovo----------------------------------------------

cd /home/share/biosoft
git clone https://github.com/ruanjue/smartdenovo.git && (cd smartdenovo; make)echo 'export PATH=/home/share/biosoft/smartdenovo:$PATH' >> ~/.bashrcsource ~/.bashrc

----------------------------------------------------------wtdbg2----------------------------------------------

git clone https://github.com/ruanjue/wtdbg2
cd wtdbg2 && makeecho 'export PATH=/home/share/biosoft/wtdbg2:$PATH' >> ~/.bashrcsource ~/.bashrc

2）三代矫正软件

--------------------------------------------------------------racon----------------------------------------------

git clone --recursive https://github.com/isovic/racon.git racon
cd racon
mkdir build
cd build
cmake -DCMAKE_BUILD_TYPE=Release ..
makeecho 'export PATH=/home/share/biosoft/racon/build/bin:$PATH' >> ~/.bashrcsource ~/.bashrc

----------------------------------------------------------------Nanopolish-------------------------------------

git clone --recursive https://github.com/jts/nanopolish.git
cd nanopolish
makeecho 'export PATH=/home/share/biosoft/nanopolish:$PATH' >> ~/.bashrcsource ~/.bashrc

---------------------------------------------------------------Pilon-----------------------------------

软件安装，官方给了官方提供了编译好的jar包，方便使用。

wget https://github.com/broadinstitute/pilon/releases/download/v1.23/pilon-1.23.jarecho 'export PATH=/home/share/biosoft/pilon:$PATH' >> ~/.bashrcsource ~/.bashr#java -Xmx16G -jar pilon-1.23.jar --参数 （jar软件使用方法，这里使用16G，如果在其它地方，pilon-1.23.jar则用全路径）

3）去冗余软件

redundans软件集群上以及安装这里就不在安装了

4）参考文献：

https://github.com/marbl/canu

https://github.com/ruanjue/smartdenovo

https://github.com/ruanjue/wtdbg2

https://github.com/jts/nanopolish

https://github.com/broadinstitute/pilon/wiki

https://github.com/broadinstitute/pilon/releases