Compiling and Installing Cufflinks

Use PuTTY to log in to the server as the root user.
Run the following command to go to the Cufflinks installation directory:
```
cd /path/to/CUFFLINKS
```
Run the following command to decompress the Cufflinks installation package:
```
unzip cufflinks-master.zip
```
Run the following command to switch to the directory generated after the package is decompressed:
```
cd cufflinks-master
```
Run the following command to generate a configure file:
```
./autogen.sh --install
```

Run the following command perform configuration:

./configure --with-boost=/path/to/BOOST --with-eigen=/path/to/EIGEN/eigen-3.3.7 --prefix=/path/to/CUFFLINKS/build

Run the following commands to perform compilation and installation:
```
make -j 16 install
```
Run the following commands to add the Cufflinks environment variables:
```
export PATH=/path/to/CUFFLINKS/build/bin:$PATH
```

Parent topic: Cufflinks 2.2.1 Porting Guide (CentOS 7.6)