[R-SIG-Mac] udunits and RNetCDF ... simple or hard to get Mac version?
David Pierce
dpierce at ucsd.edu
Fri Jan 15 03:12:55 CET 2010
Currently, udunits-1, although I have a beta version that works with
udunits-2 that you are welcome to get a copy of (aka "be a guinea pig
for").
--Dave
Jan de Leeuw wrote:
> Robert, you should look at the config.log first
>
> now, Dave, do you expect udunits-1 or udunits-2
> to be installed ?
>
>
> On Jan 14, 2010, at 17:57 , David Pierce wrote:
>
>> Hello,
>>
>> maintainer of the udunits package here. Can you install other source
>> packages successfully? Seeing the error "C compiler cannot create
>> executables" makes me suspect it's not a problem with the udunits
>> package
>> per se.
>>
>> Regards,
>>
>> --Dave
>>
>>
>> Robert Chatfield wrote:
>>> We have been using both ncdf and RNetCDF
>>> packages, and often enjoy the general approach
>>> offered by RNetCDF
>>>
>>> That package has not been available on the Mac for
>>> some time, it appears, ... but was maybe available
>>> last year (see message below).
>>>
>>> According to the CRAN documentation page and my own
>>> attempts to acquire RNetCDF, the problem
>>> appears to be with the needed package "udunits"
>>>
>>> That package is also useful for atmosphere, oceans,
>>> and connected sciences.
>>>
>>> With a MacPro 1.1 running 10.5.8 and the indicated R and RGui,
>>> I get this result
>>>
>>> * installing *source* package ‘udunits’ ...
>>> creating cache ./config.cache
>>> checking how to run the C preprocessor... gcc -arch i386 -std=gnu99 -E
>>> checking for gcc... gcc -arch i386 -std=gnu99
>>> checking whether the C compiler (gcc -arch i386 -std=gnu99 -g -O2 )
>>> works... no
>>> configure: error: installation or configuration problem: C compiler
>>> cannot create executables.
>>> ERROR: configuration failed for package ‘udunits’
>>> * removing ‘/Library/Frameworks/R.framework/Versions/2.10/Resources/
>>> library/udunits’
>>>
>>> The downloaded packages are in
>>> ‘/private/var/folders/pb/pbT1eFNa2RaEvE+1Yx812U+++TI/-Tmp-/RtmpzhkbgP/
>>> downloaded_packages’
>>>>
>>>>
>>>> sessionInfo()
>>> R version 2.10.0 (2009-10-26)
>>> i386-apple-darwin9.8.0
>>>
>>> locale:
>>> [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>>>
>>> attached base packages:
>>> [1] stats graphics grDevices utils datasets methods base
>>>
>>> loaded via a namespace (and not attached):
>>> [1] tools_2.10.0
>>> Warning message:
>>> In install.packages(c("udunits"), lib = "/Library/Frameworks/
>>> R.framework/Resources/library/", :
>>> installation of package 'udunits' had non-zero exit status
>>>>
>>>
>>> ***************
>>> Is this hard to fix?
>>> Could there be a RNetCDF without the udunits package? .... I myself
>>> use udunits rather rarely.
>>>
>>> Bob Chatfield
>>>
>>>
>>>
>>>
>>>>> Message: 2
>>>>> Date: Sat, 4 Jul 2009 14:35:40 -0700
>>>>> From: Jan de Leeuw <deleeuw at stat.ucla.edu>
>>>>> Subject: Re: [R-SIG-Mac] Unable to install package RGtk2
>>>>> To: "r-sig-mac at stat.math.ethz.ch Mac List"
>>>>> <r-sig-mac at stat.math.ethz.ch>
>>>>> Cc: statcompute <statcompute at mta.stat.ucla.edu>
>>>>> Message-ID: <FD535A21-B873-4986-8466-876455B77C1C at stat.ucla.edu>
>>>>> Content-Type: text/plain; charset=windows-1252; format=flowed;
>>>>> delsp=yes
>>>>>
>>>>> I have a 2.5 GB file localxxxxxx.tgz, with xxxxxx indicating the
>>>>> date.
>>>>>
>>>>> You can get it from afp://gifi.stat.ucla.edu and then
>>>>> from my Public directory in /software. Or from a WebDAV connection to
>>>>> http://public.me.com/jdeleeuw/software (it's currently gone from
>>>>> me.com, but
>>>>> it will be there again soon).
>>>>>
>>>>> It contains
>>>>>
>>>>> a. 64-bit version of R-devel (a.k.a R-2.10.0) with about 600
>>>>> packages.
>>>>> It supports the
>>>>> GTK+, tcl/tk, SciViews, etc interfaces.
>>>>>
>>>>> b. 64-bit version of grass-trunk (a.k.a. GRASS-7.0).
>>>>>
>>>>> c. Support-libraries and executables, all 64-bit, for ImageMagick,
>>>>> freetype, GDAL, proj,
>>>>> gsl, gmp, mpfr, fftw, mysql, pgsql, hadoop, root, heasoft, hdf4/5,
>>>>> netcdf, graphviz,
>>>>> ffmpeg, asymptote, expat, cdd, cfitsio, fontconfig, gc, geos,
>>>>> geotiff, gd, tiff, jpeg,
>>>>> png, svg, gettext, harminv, iconv, intl, jags, jasper, las,
>>>>> pixman, qhull, readline,
>>>>> sqlite, szip, tcl/tk, udunits, xml2, gtk2, gdk, atk, glib, cairo,
>>>>> pango, glade, git,
>>>>> wget, gawk, sed, gs, pkg-config, tramo, seats, x12a, yacas, pvm3
>>>>> --- probably more.
>>>>>
>>>>> d. A 64-bit version of gcc, g++, gfortran 4.2.5 with gomp.
>>>>> Everything,
>>>>> including the
>>>>> compilers, is compiled with flags "-m64 -O3 -fopenmp -
>>>>> mtune=native" -- "native" in
>>>>> this context means "nocona", i.e. Intel Core Duo.
>>>>>
>>>>> e. texlive-2008
>>>>>
>>>>> It is updated one or twice per week with recent cvs, svn or git
>>>>> versions. It installs in
>>>>> /usr/local. The R is pretty snappy on my machine.
>>>>>
>>>>> !!!!!!!!!!!!!!!!!
>>>>> Limitations
>>>>> !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
>>>>>
>>>>> 1. This is for CLI junkies. Normal people will stay away from this.
>>>>>
>>>>> 2. The quartz device in R works, but many other things are either GTK
>>>>> +, tcl/tk, or even
>>>>> Athena.
>>>>>
>>>>> 3. This was compiled on OS X 10.6 (Snow Leopard). Your Leopard
>>>>> mileage
>>>>> may vary. No
>>>>> universal binaries of any sort, of course.
>>>>>
>>>>> 4. Basically it creates a separate 64-bit development environment,
>>>>> independent of the Apple stuff
>>>>> (and independently, if you want, of the "normal" and nice R and
>>>>> GRASS framework-builds and GUIs).
>>>>>
>>>>> 5. This is a large file. After unpacking "du -s /usr/local" says
>>>>> 14167872 (i.e. 14 GB).
>>>>>
>>>>> 6. I am not really supporting this for users outside my department.
>>>>> That would be unwise.
>>>
>>>
>>> Dr. Robert Chatfield
>>> Earth Sciences, MS 245-5
>>> NASA Ames Research Center
>>> Moffett Field, CA 94035 USA
>>>
>>> Ph: 650-604-5490 FAX 650-604-3625
>>>
>>> http://geo.arc.nasa.gov/sgg/chatfield
>>>
>>>
>>>
>>>
>>>
>>
>>
>> -------------------------------------------------------------------
>> David W. Pierce
>> Division of Climate, Atmospheric Science, and Physical Oceanography
>> Scripps Institution of Oceanography
>> (858) 534-8276 (voice) / (858) 534-8561 (fax) dpierce at ucsd.edu
>> -------------------------------------------------------------------
>>
>>
>>
>
> ===
> Jan de Leeuw; Distinguished Professor and Chair, UCLA Department of
> Statistics;
> Director: UCLA Center for Environmental Statistics (CES);
> Editor: Journal of Multivariate Analysis, Journal of Statistical Software;
> US mail: 8125 Math Sciences Bldg, Box 951554, Los Angeles, CA 90095-1554
> phone (310)-825-9550; fax (310)-206-5658; email: deleeuw at stat.ucla.edu
> .mac: jdeleeuw ++++++ aim: deleeuwjan ++++++ skype: j_deleeuw
> homepages: http://gifi.stat.ucla.edu ++++++ http://www.cuddyvalley.org
> -------------------------------------------------------------------------------------------------
> No matter where you go, there you are. --- Buckaroo Banzai
> http://gifi.stat.ucla.edu/sounds/nomatter.au
> -------------------------------------------------------------------------------------------------
>
>
>
>
>
>
>
-------------------------------------------------------------------
David W. Pierce
Division of Climate, Atmospheric Science, and Physical Oceanography
Scripps Institution of Oceanography
(858) 534-8276 (voice) / (858) 534-8561 (fax) dpierce at ucsd.edu
More information about the R-SIG-Mac
mailing list