[Bioc-devel] BioC 2.2 (Devel): xcms package update for Mac OS X 10.5.1 (Leopard) (was Re: netCDF on pelham)

[Patrick Aboyoun]

Steffen,
I installed universal binaries (i386, x86_64, ppc) for the NetCDF 
development libraries on the Mac OS X 10.5.1 build machine yesterday and 
you can now retrieve an OS X binary package for xcms at

http://bioconductor.org/packages/2.2/bioc/html/xcms.html

Keep in mind that the xcms package is not passing check on any of OS for 
the BioC 2.2 (Devel) builds, so you may want to use the BioC 2.1 
(Release) build of xcms with R 2.6.1 (Release) until that has been 
rectified.


Cheers,
Patrick



hpages at fhcrc.org wrote:
> Hi Steffen,
>
> Installing the missing libraries is still a work-in-progress on pelham.
> Unfortunately using tools like fink or Darwinports doesn't work because
> they don't support multi-arch compilation (BioC universal binary packages
> need to be linked against fat libraries) so many things need to be compiled
> by hand. NetCDF is on the list and should be ready soon.
>
> Thanks for your patience!
>
> Cheers,
> H.
>
>
> Quoting sneumann <sneumann at ipb-halle.de>:
>
>   
>> [Re-sent without pgp signature]
>>
>> Hi,
>>
>> I'd like to know whether and possibly when 
>> we can have NetCDF development libraries on pelham (MacOSX).
>>
>> XCMS is complaining 
>>
>> 	gcc-4.2 -arch i386 -std=gnu99
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/Library/Frameworks/R.framework/Resources/include/i386 -I/usr/local/include
>> -I/sw/include -D_LARGEFILE_SOURCE -I/usr/local/include    -fPIC  -g -O2
>> -march=nocona -c netCDF.c -o netCDF.o
>> 	netCDF.c:2:20: error: netcdf.h: No such file or directory
>>
>> I don't know which software repositories are used on pelham, 
>> or whether they're in gcc's standard include path,
>> but I know that there is a package on fink.sf.net.
>>
>> Yours,
>> Steffen
>>
>> -- 
>> IPB Halle                    AG Massenspektrometrie & Bioinformatik
>> Dr. Steffen Neumann          http://www.IPB-Halle.DE
>> Weinberg 3                   http://msbi.bic-gh.de
>> 06120 Halle                  Tel. +49 (0) 345 5582 - 1470
>>                                   +49 (0) 345 5582 - 0
>> sneumann(at)IPB-Halle.DE     Fax. +49 (0) 345 5582 - 1409
>>
>> _______________________________________________
>> Bioc-devel at stat.math.ethz.ch mailing list
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>>
>>     
>
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