For example, I want to map "j" to "page down" key for acroread program on Linux. I think maybe there is some program can do such x window keyboard event mapping.

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You could write a script to modify the keys with xmodmap when you start acroread (and change them back once acroread has closed.)

For example

#!/bin/bash

xmodmap -e "keycode 44 = Next"
xmodmap -e "keycode 45 = Prior"
/usr/bin/acroread 
xmodmap -e "keycode 44 = j J"
xmodmap -e "keycode 45 = k K"

Instead of running acroread directly, you run this script.

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