[EMBOSS] install EMBOSS-3.0.0 on Intel Mac

[ajb at ebi.ac.uk]

Apologies for the last message. Wrong button clicked on my mailer.

You may be able to get past your current error by specifying
   --without-pngdriver
on the configure line. However, as Koen has said, it is probably
caused by something wrong in your FINK installation and is best
fixed. Koen and the FINK team are the best people to ask about that. It
isn't an EMBOSS problem as such. We make sure that EMBOSS works on
relatively virgin OS installations; other projects such as FINK can
then add bells and whistles.

HTH

Alan

> Thank you very much for your advice.
>
> On 2006/06/05, at 0:12, ajb at ebi.ac.uk wrote:
>> Dear Haruo,
>>
>>> ajindex.c: In function 'ajBtreeCacheNewC':
>>> ajindex.c:200: error: storage size of 'buf' isn't known
>>> ajindex.c: In function 'ajBtreeSecCacheNewC':
>>> ajindex.c:8234: error: storage size of 'buf' isn't known
>>> make[1]: *** [ajindex.lo] Error 1
>>> make: *** [all-recursive] Error 1
>>
>> That error shows that something went wrong when you tried to apply
>> the fixes from the ftp server. You are trying to compile the
>> original ajindex.c file. I'd suggest that you compare the file sizes
>> on your local system with those in the fixes directory and reapply
>> any fixes as appropriate.
>>
>> HTH
>>
>> Alan
>
> Although I made sure if I replaced the old files with new files
> in the fixes directory and redo the 'make', I failed.
>
> % make
>
> *snip*
>
> /bin/sh ../libtool --tag=CC --mode=link gcc  -O1   -o aaindexextract
> aaindexextract.o ../nucleus/libnucleus.la ../ajax/libajaxg.la ../ajax/
> libajax.la ../plplot/libplplot.la -L/usr/X11R6/lib -lX11  -lm  -lgd -
> lpng -lz -lm
> mkdir .libs
> libtool: link: warning: library `/usr/local/lib/libgd.la' was moved.
> libtool: link: warning: library `/usr/local/lib/libgd.la' was moved.
> libtool: link: cannot find the library `/opt/local/lib/libjpeg.la'
> make[2]: *** [aaindexextract] Error 1
> make[1]: *** [all-recursive] Error 1
> make: *** [all-recursive] Error 1
>
> On 2006/06/04, at 17:58, Koen van der Drift wrote:
>>
>> On Jun 4, 2006, at 8:23 PM, haruosuz at yahoo.co.jp wrote:
>>
>>> dpkg: error processing /sw/fink/dists/unstable/main/binary-darwin-
>>> i386/graphics/libjpeg_6b-16_darwin-i386.deb (--install):
>>> package architecture (darwin-i386) does not match system (darwin-
>>> powerpc)
>>> dpkg: error processing /sw/fink/dists/unstable/main/binary-darwin-
>>> i386/graphics/libjpeg-bin_6b-16_darwin-i386.deb (--install):
>>> package architecture (darwin-i386) does not match system (darwin-
>>> powerpc)
>>> Errors were encountered while processing:
>>> /sw/fink/dists/unstable/main/binary-darwin-i386/graphics/
>>> libjpeg_6b-16_darwin-i386.deb
>>> /sw/fink/dists/unstable/main/binary-darwin-i386/graphics/libjpeg-
>>> bin_6b-16_darwin-i386.deb
>>> ### execution of dpkg failed, exit code 1
>>> Failed: can't batch-install packages: /sw/fink/dists/unstable/main/
>>> binary-darwin-i386/graphics/libjpeg_6b-16_darwin-i386.deb /sw/fink/
>>> dists/unstable/main/binary-darwin-i386/graphics/libjpeg-
>>> bin_6b-16_darwin-i386.deb
>>
>>
>> Haruo,
>>
>> That's an error for the libjpeg package in fink. I suggest you
>> contact the libjpeg package maintainer (%fink info libjpeg).
>>
>> good luck,
>>
>> - Koen.
>
>
> Begin forwarded message:
>
>> Actually, the problem is not with the libjpeg package in fink.  The
>> problem is that you are somehow mixing the intel and powerpc
>> versions of fink.  My guess is that you installed fink by using the
>> Fink-0.8.0-Installer?  Unfortunately, that only works correctly on
>> powerpc.  To install fink on intel, you must bootstrap it from
>> scratch, as mentioned on the fink homepage.  If you have trouble
>> with this, please consult the mailing list fink-
>> users at lists.sourceforge.net
>
>
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