1.Installation¶

1-1.Download¶

Note

Applications in the Requirement section must be installed on your computer before running the Octopus-toolkit.

Octopus-toolkit_2.2.0 : (Octopus-toolkit) (64bit)
Octopus-toolkit_mac_2.2.0 : (Octopus-toolkit_mac)

1-2.Installation Movie Clip¶

Tutorial for installation
Ubuntu 16.04 version. (Youtube - Ubuntu 16.04)
CentOS 6.9 version. (Youtube - CentOS 6.9) - Currently not supported.
CentOS 7 version. (Youtube - CentOS 7)
MacOS Sierra 10.12.6 version (Youtube - MacOS Sierra 10.12.6)

1-3.Requirement¶

To run the Octopus-toolkit, Java 8 (JDK, Java Development ToolKit) or higher, must be installed on your computer.

Ubuntu, Mint (Ubuntu 16.04 or Mint18 ):

sudo apt-get update
sudo apt-get install openjdk-8-jdk

Ubuntu (14.04):

sudo add-apt-repository ppa:openjdk-r/ppa
sudo apt-get update
sudo apt-get install openjdk-8-jdk
sudo update-alternatives --config java
sudo update-alternatives --config javac

Fedora, CentOS(Fedora 22~25 or CentOS 7 ):

sudo yum update
sudo yum install java-1.8.0-openjdk

Octopus-toolkit utilizes several libraries for analysis. Each operating system such as ubuntu, mint and fedora differ in ways to install the applications. Please follow the installation guide below.

1-4.Ubuntu(14.04,16.04), Mint(18)¶

To run the Octopus-toolkit, you must install the following libraries: zlib1g, libpng12, libncurses5, g++, liblzma, libbz2

zlib1g-dev
```
sudo apt-get install zlib1g-dev
```
libncurses5-dev
```
sudo apt-get install libncurses5-dev
```
g++
```
sudo apt-get install build-essential
```
liblzma-dev
```
sudo apt-get install liblzma-dev
```
libbz2-dev
```
sudo apt-get install libbz2-dev
```

OR

sudo apt-get install zlib1g-dev libpng12-dev libncurses5-dev build-essential liblzma-dev libbz2-dev

In the Ubuntu version (18.04)

libpng-dev
```
sudo apt-get install libpng-dev
```

Another Ubuntu version (14.04``16.04), Mint (18)

libpng12-dev
```
sudo apt-get install libpng12-dev
```

1-5.Fedora(22~25), CentOS(7)¶

To run the Octopus-toolkit, you must install the following libraries: zlib, libpng , libpng12, ncurses, gcc-c++, libbz2, liblzma

zlib-devel
```
sudo yum install zlib-devel.x86_64
```
libpng-devel
```
sudo yum install libpng-devel.x86_64
```
libpng-devel12
```
sudo yum install libpng12-devel.x86_64
```
ncurses-devel
```
sudo yum install ncurses-devel.x86_64
```
gcc-c++
```
sudo yum install gcc-c++
```
libbz2
```
sudo yum install bzip2-devel
```
liblzma
```
sudo yum install xz-devel
```

OR

sudo yum install zlib-devel.x86_64 libpng-devel.x86_64 libpng12-devel.x86_64 ncurses-devel.x86_64 gcc-c++ bzip2-devel xz-devel

1-6.MacOS(Sierra_10.12.6)¶

Note

Applications in the Requirement section must be installed on your computer before running the Octopus-toolkit (Mac version).

To run the Octopus-toolkit, Java 8 (JDK, Java Development ToolKit) or higher, must be installed on your computer. (Octopus-toolkit_mac_2.1.3)

Java 8 (JDK, Java Development ToolKit) or higher:

Link : http://www.oracle.com/technetwork/java/javase/downloads/index.html

Click the JDK DOWNLOAD Button

Click the Accept License Agreement radio button.
Click the jdk-(version)-macosx-x64.dmg

Go to the Download folder. Execute the downloaded installation file.
Double click on icon to install.

Octopus-toolkit utilizes several libraries for analysis. Please follow the installation guide below.

Xcode Update:
```
xcode-select --install
```

Library (wget, liblzma,libpng):

/usr/bin/ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)"
brew install wget
brew install xz
brew install libpng

1-7.R (3.1)¶

To draw heatmap and Line plot, R (3.1) or higher version of R must be installed on your computer.

Ubuntu, Mint (Ubuntu 16.04 or Mint18 ):
```
sudo apt-get install r-base
```

Ubuntu (14.04):

sudo apt-get update
sudo apt-get install r-base
sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E084DAB9
sudo add-apt-repository ppa:marutter/rdev
sudo apt-get update
sudo apt-get upgrade
sudo apt-get install r-base

Fedora (Fedora 22~25 ):
```
sudo yum install R
```

CentOS (CentOS 7 ):

sudo yum install epel-release
sudo yum install R

MacOS (Sierra):

/usr/bin/ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)"
brew install r