[Bioc-devel] BioC 2.2 (Devel): xcms package update for Mac OS X 10.5.1 (Leopard) (was Re: netCDF on pelham)
paboyoun at fhcrc.org
Thu Jan 24 21:13:51 CET 2008
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
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
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!
> Quoting sneumann <sneumann at ipb-halle.de>:
>> [Re-sent without pgp signature]
>> 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/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.
>> 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
> Bioc-devel at stat.math.ethz.ch mailing list
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