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I never use the <AppsKey> (or <Menu>), and I want to convert it to a modifier key, e.g. Mod4, Mod5, etc. So as to utilize some shortcuts like <Mod5>+<Shift>+J.

Is it possible in Debian/Linux?

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Pick a free modifier key name such as Hyper or Super (it must not be used by another key). Also pick a free modifier number amongst Mod1 to Mod5. You can figure out the free ones by looking through the output of xmodmap -pke -pm. Also figure out the keycode for the Menu key. Then add lines like the following to ~/.Xmodmap:

keycode 0x75 = Hyper_R
add Mod4 = Hyper_R

If you're not already using a .Xmodmap file, add the following line to your X startup script (maybe ~/.xinitrc or ~/.xsession; some desktop environments automatically read ~/.Xmodmap so you won't need this step):

xmodmap - <~/.Xmodmap
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A little question, which one should I use in best practice, .xinitrc or .xsession ? –  Xiè Jìléi Sep 25 '10 at 0:03
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@谢继雷: it's not a matter of best practice: you have to use .xinitrc if you log in in text mode then run startx, and you have to use .xsession if you log in under *dm. If you use your own session script (which is not as common as it used to be: nowadays most people start a desktop environment which has its own way of running commands when you log in), you can arrange for .xsession to contain just . ~/.profile; . ~/.xinitrc. –  Gilles Sep 25 '10 at 0:29
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