I have a version 23.xxx Emacs, and I do get the message about the coding that disagree with the buffer.
I will try what you propose in this message and the next one and let you know if this solves the issue.

Thanks for the information !!

   Vincent.



> Date: Sat, 9 May 2009 10:01:15 +0300
> From: eliz@gnu.org
> To: vincent.b.1@hotmail.fr
> CC: emacs-devel@gnu.org
> Subject: Re: How to overwrite completely a buffer with a file,	with overwriting also the coding system ?
> 
> > From: =?iso-8859-1?Q?Vincent_Bela=EFche?= <vincent.b.1@hotmail.fr>
> > Date: Fri, 8 May 2009 23:07:44 +0200
> > 
> > When I create a new target-file from a template, emacs-template creates a buffer for this target-file, which therefore is created with the default coding-system (iso-latin-1-dos for my machine), and then emacs-template insert into this buffer the content of the template file. Now I want that the file be created with iso-latin-1-unix coding. Even though the template file contains a -*- coding: iso-latin-1-unix -*- the target file is created with dos end-of-lines.
> 
> What Emacs version is this?  I think Emacs 23 will ask the user for
> confirmation if the `coding:' cookie disagrees with the buffer's
> encoding.
> 
> In any case, if you call the `find-auto-coding' function right after
> inserting the template, this function will tell you what encoding
> should the buffer use, taking into account the file's name and the
> `coding:' cookie.  You can then set the right encoding by calling
> `set-buffer-file-coding-system'.
> 
> 

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