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If the user has java enabled in their browser, then they can enable the lightning bolt to the left of the add files button.

This activates the java plugin in the browser. Then using the add files button, files are added through the advanced mode. Those items will appear with a lightning bolt to their left and will be accelerated in transfer if the tunnel steps have been completed.

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An alternative method is to have end users use a local tunnel client on their machine. This tunnel client has an icon in the menu bar in OS X and systray on Windows.

1.) Setup the ports, and configure the tunnel with the appropriate number of channels.
2.) Create a user in the User Manager called "vpn". Don't give them access to any files, just a user called "vpn" with a pass "speed". Nothing more. Quick jump down to the tunnels section in the user and grant them access to your tunnel. Save.
3.) Duplicate the CrushTunnel.jnlp file in your CrushFTP folder, WebInterface folder. Call it vpn.jnlp. Edit it and change this line:

 <argument>appname=CrushTunnel:::remote.protocol=%user_protocol%:::remote.ip=%user_listen_ip%:::remote.port=%user_port%</argument>
 

to:

 <argument>appname=CrushTunnel:::remote.protocol=%user_protocol%:::remote.ip=%user_listen_ip%:::remote.port=%user_port%:::remote.user=vpn:::remote.pass=speed</argument>

Note how we embedded the user/pass into the jnlp file so the suer doesn't need to type these in. This user account is not granting any access other than faster connectivity.
4.) Give the end user a link for your tunnel. http://domain.com/WebInterface/vpn.jnlp or https://.
5.) Then click the link and run the java app locally. it shows a tunnel icon in their systray or menubar. They use that to "Launch web browser" which will open the browser to the url: http://127.0.0.1:55555/ which is a specific URL to go through the tunnel to your site.

That is all. They don't need to do advanced mode, their account doesn't need the tunnel (vpn has it), their transfers will now overcome latency.