1) This is how you configure start up apps on raspbian :
sudo nano /etc/xdg/lxsession/LXDE-pi/autostart
2) Add the following code to the autostart script
@sh /home/pi/startsynergy.sh
3) Now let create the startup script for example a script that lauches synergy keyboard and mouse sharing on raspberry pie :
nano startsynergy.sh
Put the following code in the script
#!/bin/sh
killall synergyc
sleep 1
synergyc --name pi 192.168.1.66
exit 0
4) Now add execute permissions to the script
sudo chmod +x /home/pi/startsynergy.sh
5) Reboot your pie
sudo shutdown -r 0
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