Java, which is already installed.

Here is the procedure to install Jalview:

• Jalview is distributed as a binary installer. Create a folder in /home/bioubuntu to put ut in and move it to /opt/bio/sources.

• This folder should belong to root and its permissions set to 755.

% sudo chown -R root:root /opt/bio/sources/jalview
% sudo chmod 755 /opt/bio/sources/jalview

• Once you are in /opt/bio/sources/jalview, you need to be able to launch the installer:

% sudo chmod u+x install.bin
% sudo ./install.bin

• Let the installer do its stuff with default settings except that the install location is set from /root/Jalview to /opt/bio/sources/jalview.

• Let's make the application available to everyone:

% sudo ln -s /opt/bio/sources/jalview/Jalview /usr/local/bin/jalview

• To add Jalview in the Impilo application menu, you need to modify the Xfce4 configuration file:

% sudo xfce4-menueditor /etc/xdg/xfce4/desktop/menu.xml

• The three things to add are :
  • Item: Launcher
  • Name: Jalview
  • Command: jalview