Re: [Fink-beginners] installing Bio::Graphics

[Paul C. <pca...@gm...>]

On Wed, Sep 29, 2010 at 12:16 PM, Alexander Hansen
<ale...@gm...> wrote:
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> On 9/29/10 11:12 AM, Paul Cantalupo wrote:
>> Hello,
>>
>> First, I've successfully installed Bio::Graphics before under Cygwin
>> on Windows. Now I'm trying to do it on Snow Leopard. Fink does not
>> have Bio::Graphics so I got it from CPAN.
>>
>> I ran the tests and they were successful:
>>
>> Titan:~/src/Bio-Graphics-2.13 foo$ ./Build test
>> t/BioGraphics.t .. ok
>> t/Wiggle.t ....... ok
>> All tests successful.
>> Files=2, Tests=63,  1 wallclock secs ( 0.04 usr  0.00 sys +  1.00 cusr
>>  0.08 csys =  1.12 CPU)
>> Result: PASS
>>
>>
>> But when installing, I am getting a "wrong architecture" error which
>> seems to be a problem with my Fink installation:
>>
>> Titan:~/src/Bio-Graphics-2.13 foo$ sudo ./Build install
>> Password:
>> Can't load '/sw/lib/perl5/5.10.0/darwin-thread-multi-2level/auto/IO/IO.bundle'
>> for module IO: dlopen(/sw/lib/perl5/5.10.0/darwin-thread-multi-2level/auto/IO/IO.bundle,
>> 1): no suitable image found.  Did find:
>>       /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/auto/IO/IO.bundle:
>> mach-o, but wrong architecture at
>> /System/Library/Perl/5.10.0/darwin-thread-multi-2level/XSLoader.pm
>> line 67.
>>  at /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO.pm line 11
>> Compilation failed in require at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/Handle.pm line 266.
>> BEGIN failed--compilation aborted at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/Handle.pm line 266.
>> Compilation failed in require at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/Seekable.pm line
>> 101.
>> BEGIN failed--compilation aborted at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/Seekable.pm line
>> 101.
>> Compilation failed in require at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/File.pm line 133.
>> BEGIN failed--compilation aborted at
>> /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/IO/File.pm line 133.
>> Compilation failed in require at
>> /sw/lib/perl5/5.10.0/Module/Build/Base.pm line 20.
>> BEGIN failed--compilation aborted at
>> /sw/lib/perl5/5.10.0/Module/Build/Base.pm line 20.
>> Compilation failed in require at /sw/lib/perl5/5.10.0/Module/Build.pm line 14.
>> BEGIN failed--compilation aborted at
>> /sw/lib/perl5/5.10.0/Module/Build.pm line 14.
>> Compilation failed in require at ./Build line 45.
>> BEGIN failed--compilation aborted at ./Build line 45.
>>
>>
>>
>> Any ideas of what to try? I'm at a loss as to what to do.
>>
>>
>> Thank you,
>>
>> Paul
>>
>
> By default, the perl5.10 on OS X ties to build universal binaries, and
> Fink doesn't do that.
>
> We explicitly force an architecture in our perlmodules.  E.g.:
>
> $ fink dumpinfo -fcompilescript io-pm5100
> Information about 9695 packages read in 1 seconds.
> compilescript:
>  ARCHFLAGS="" /usr/bin/arch -i386 perl5.10.0 Makefile.PL
> PERL="/usr/bin/arch -i386 perl5.10.0" PREFIX=/sw32
> INSTALLPRIVLIB=/sw32/lib/perl5/5.10.0
> INSTALLARCHLIB=/sw32/lib/perl5/5.10.0/darwin-thread-multi-2level
> INSTALLSITELIB=/sw32/lib/perl5/5.10.0
> INSTALLSITEARCH=/sw32/lib/perl5/5.10.0/darwin-thread-multi-2level
> INSTALLMAN1DIR=/sw32/share/man/man1 INSTALLMAN3DIR=/sw32/share/man/man3
> INSTALLSITEMAN1DIR=/sw32/share/man/man1
> INSTALLSITEMAN3DIR=/sw32/share/man/man3 INSTALLBIN=/sw32/bin
> INSTALLSITEBIN=/sw32/bin INSTALLSCRIPT=/sw32/bin
>  make
>
> To link against Fink's perlmodules you'd need to do something similar.
>

Not sure how to do that.

> It might be easier just to use all of the magic that Fink does by
> default and come up with a Fink package description file. :-)
>

Where do I start learning about this?

> (Also, do you really need to install your CPAN packages globally, rather
> than just in your home directory?

No. How do I do this?

> For security reasons 'sudo' strips
> the environment for Perl stuff, including Fink's PERL5LIB settings.  We
> have to go to some pains to deal with that, since Fink does have to use
> 'sudo'.)

Good to know.


Thank you,

Paul