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Basically I would like to have an indicator that will run and display the output of a custom command (like uptime) or script (self-written), just like Xubuntu have one.

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Yes, indicator-sysmonitor. You can install it using this PPA

sudo add-apt-repository ppa:alexeftimie/ppa
sudo apt-get update
sudo apt-get install indicator-sysmonitor

It displays memory and CPU by default, but you can use the command or script you want.

See that script for example: http://www.webupd8.org/2011/05/how-to-display-network-upload-download.html

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