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From: Eli Zaretskii <eliz@gnu.org>
Newsgroups: gmane.emacs.devel
Subject: Re: Functions in kill-emacs-hook aren't run if emacs gets killed
	with	SIGTERM
Date: Sat, 24 Jan 2009 20:20:25 +0200
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To: grischka <grishka@gmx.de>
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> Date: Sat, 24 Jan 2009 18:56:17 +0100
> From: grischka <grishka@gmx.de>
> CC: emacs-devel@gnu.org
> 
> Eli Zaretskii wrote:
> > Pressing Ctrl-C where? Emacs redefines SIGINT so that it is produced
> > by C-g, not by C-c (because the latter is used in many key sequences),
> > so I presume you don't mean typing Ctrl-C into the Emacs window.  But
> > then where did you type it?
> 
> In the xterm.

It aborts in eval.c here:

  if (gc_in_progress || waiting_for_input)
    abort ();

Can you see which one of gc_in_progress and waiting_for_input is
non-zero?