R help - Apr 2014 - Any solution to have RnetCDF, ncdf or ncdf4 in R 3.1 ?

I just have installed the last RC of R 3.1. All is ok except for 3 
packages that I was not able to compile and they do not exist as 
precompiled package for MacOSX (Marverick):

These packages are RnetCDF, ncdf or ncdf4. For all, I get error when I 
try to install them:
install.packages("RNetCDF", type="source")
....
checking for nc_create in -lnetcdf... no
configure: error: netcdf library not found
ERROR: configuration failed for package ?RNetCDF?
* removing 
?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/RNetCDF?

install.packages("ncdf", type="source")
....
configure: error: netcdf header netcdf.h not found
ERROR: configuration failed for package ?ncdf?
* removing 
?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/ncdf?
Warning in install.packages :
installation of package ?ncdf? had non-zero exit status

install.packages("ncdf4", type="source")
....
ERROR: configuration failed for package ?ncdf4?
* removing 
?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/ncdf4?
Warning in install.packages :
installation of package ?ncdf4? had non-zero exit status

Sincerely,

Marc Girondot

Hello,

Do you have NetCDF library correctly installed (with headers)?

Regards,
Pascal

On Sun, Apr 6, 2014 at 11:26 PM, Marc Girondot <marc_grt at yahoo.fr>
wrote:
> I just have installed the last RC of R 3.1. All is ok except for 3 packages
> that I was not able to compile and they do not exist as precompiled package
> for MacOSX (Marverick):
>
> These packages are RnetCDF, ncdf or ncdf4. For all, I get error when I try
> to install them:
> install.packages("RNetCDF", type="source")
> ....
> checking for nc_create in -lnetcdf... no
> configure: error: netcdf library not found
> ERROR: configuration failed for package ?RNetCDF?
> * removing
> ?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/RNetCDF?
>
> install.packages("ncdf", type="source")
> ....
> configure: error: netcdf header netcdf.h not found
> ERROR: configuration failed for package ?ncdf?
> * removing
> ?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/ncdf?
> Warning in install.packages :
> installation of package ?ncdf? had non-zero exit status
>
> install.packages("ncdf4", type="source")
> ....
> ERROR: configuration failed for package ?ncdf4?
> * removing
> ?/Library/Frameworks/R.framework/Versions/3.1/Resources/library/ncdf4?
> Warning in install.packages :
> installation of package ?ncdf4? had non-zero exit status
>
> Sincerely,
>
> Marc Girondot
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.


-- 
Pascal Oettli
Project Scientist
JAMSTEC
Yokohama, Japan

Hi Marc,

those packages are just interfaces to the netcdf library that must already
exist on your machine. Try installing the netcdf library first, and then
installing the R package.

You will need the development version of the netcdf library installed in
order to compile the R packages. Hopefully the exact package name will be
obvious in the package manager on your system.

Regards,

--Dave



On Sun, Apr 6, 2014 at 7:26 AM, Marc Girondot <marc_grt@yahoo.fr> wrote:
> I just have installed the last RC of R 3.1. All is ok except for 3
> packages that I was not able to compile and they do not exist as
> precompiled package for MacOSX (Marverick):
>
> These packages are RnetCDF, ncdf or ncdf4. For all, I get error when I try
> to install them:
> install.packages("RNetCDF", type="source")
> ....
> checking for nc_create in -lnetcdf... no
> configure: error: netcdf library not found
> ERROR: configuration failed for package 'RNetCDF'
> * removing '/Library/Frameworks/R.framework/Versions/3.1/
> Resources/library/RNetCDF'
>
> install.packages("ncdf", type="source")
> ....
> configure: error: netcdf header netcdf.h not found
> ERROR: configuration failed for package 'ncdf'
> * removing '/Library/Frameworks/R.framework/Versions/3.1/
> Resources/library/ncdf'
> Warning in install.packages :
> installation of package 'ncdf' had non-zero exit status
>
> install.packages("ncdf4", type="source")
> ....
> ERROR: configuration failed for package 'ncdf4'
> * removing '/Library/Frameworks/R.framework/Versions/3.1/
> Resources/library/ncdf4'
> Warning in install.packages :
> installation of package 'ncdf4' had non-zero exit status
>
> Sincerely,
>
> Marc Girondot
>
> ______________________________________________
> R-help@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/
> posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>


-- 
David W. Pierce
Division of Climate, Atmospheric Science, and Physical Oceanography
Scripps Institution of Oceanography, La Jolla, California, USA
(858) 534-8276 (voice)  /  (858) 534-8561 (fax)    dpierce@ucsd.edu

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