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I'd have thought so too.  I'd say it's probably worth reinstalling X11:

http://www.finkproject.org/faq/usage-packages.php#special-x11-debug

Jamie Griffin wrote:
> thanks for getting back to me, i have tried restoring the mv,
> simply by reversing the arguments. It seemed the most logical way
> to reverse it, but it hasn't worked. do you think it's worth
> removing X11 completely and reinstalling it? is there anything else
> i can do ?
>
> On Sun, Nov 18, 2007 at 10:38:25AM -0500, Alexander Hansen wrote: I
> would imagine that your issue was indeed due to that, especially
> given that you get the same failure from MacPorts.  I'm a little
> surprised that the x11* virtual packages are present, though.  I
> have no idea how MacPorts' x11 packages are set up, so I'm not sure
> how you should proceed cleanly, other removing its X11 and anything
> that depends on it, and then restoring Apple's X11 by undoing your
> mv command below.
>
>
>
> Jamie Griffin wrote:
>>>> i don't know if it's significant, but yesterday i encountered
>>>> a problem using darwin port (sudo port install). i was trying
>>>> to down load and install eterm application, it gave me an
>>>> error saying i already had an Xpackage installed, and if i
>>>> wanted to continue with freebsd to move it aside using sudo
>>>> mv /usr/X11R6 /usr/xr6.apple.
>>>>
>>>> i only mentioned this because i haven't had problems with
>>>> fink previously until after i did this. Incidentally, when i
>>>> then tried to use mac ports to install eterm it failed with
>>>> the same error i've got from the fink download this evening.
>>>>
>>>> I'm still learning about this and not sure if it's something
>>>> i've inadvertently done!
>>>>
>>>> Jamie
>>>>
>
>>>> On Sat, Nov 17, 2007 at 03:36:22PM -0500, Alexander Hansen
>>>> wrote: Jamie Griffin wrote:
>>>>>>> does anyone have any suggestions about the problem i'm
>>>>>>> having when
>>>> using fink: after several failed attempts to download and
>>>> install software sing fink, i'm not sure what to do to fix
>>>> it. i'm getting the following errors:
>>>>>>> checking for X... no configure: error: X11 development
>>>>>>> libraries/headers not found ### execution of
>>>>>>> ./configure failed, exit code 1 Removing runtime
>>>>>>> build-lock... Removing build-lock package...
>>>>>>> /sw/bin/dpkg-lockwait -r
>>>>>>> fink-buildlock-startup-notification-0.8-3 (Reading
>>>>>>> database ... 13456 files and directories currently
>>>> installed.)
>>>>>>> Removing fink-buildlock-startup-notification-0.8-3 ...
>>>>>>> Failed: phase compiling: startup-notification-0.8-3
>>>>>>> failed
>>>>>>>
>>>>>>> this error message listed a the end of the output. can
>>>>>>> anyone
>>>>>>>
>>>> explain this for me?
>>>>>>> cheers, Jamie
>>>>>>>
>>>> What OS version  are you running?
>>>>
>>>> Are you using Apple's X11?
>>>>
>>>> Do you have both the X11User and X11SDK components of X11
>>>> installed?
>>>>
>>>> What do you get from "fink list x11"?
>>>>
>>

- --
Alexander K. Hansen
akh AT finkproject DOT org
Fink User Liaison and Documenter
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