[R] problem installing RNetCDF

Zepu Zhang zpzhang at uchicago.edu
Wed Mar 8 06:51:29 CET 2006

Hello all,

I set 'UDUNITS_PATH' and 'NETCDF_PATH' successfully to my custom places and 

% R CMD INSTALL RNetCDF_1.1-3.tar.gz

and got this:

checking for executable suffix... 
checking for object suffix... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for main in -lnetcdf... yes
checking for main in -ludunits... yes
checking for /Users/zpzhang/research/library/include/netcdf.h... yes
checking for /Users/zpzhang/research/library/include/udunits.h... yes
configure: creating ./config.status
config.status: creating R/load.R
config.status: creating src/Makevars
** libs
gcc -no-cpp-precomp -I/sw/Library/Frameworks/R.framework/Resources/
include -I/Users/zpzhang/research/library/include -I/Users/zpzhang/research/
library/include -I/sw/include   -fno-common  -g -O2 -c RNetCDF.c -o 
gcc: unrecognized option '-no-cpp-precomp'
gcc -bundle -flat_namespace -undefined suppress -lcc_dynamic -L/sw/lib -o 
RNetCDF.so RNetCDF.o -L/Users/zpzhang/research/library/lib -lnetcdf -L/
Users/zpzhang/research/library/lib -ludunits  -lcc_dynamic -F/sw/Library/
Frameworks -framework R
gcc: couldn't run 'undle-gcc-4.0.2': No such file or directory
make: *** [RNetCDF.so] Error 1
ERROR: compilation failed for package 'RNetCDF'

Does anyone have any insight to this 'undle-gcc-4.02' problem?

By the way, the package contains one C source file only but the installation 
seems quite complicated. I understand it uses 'standard' procedures---
configure, etc.---but wouldn't a simple Makefile be much easier to cope with? I 
would be pretty straightfoward what variables and paths to change, etc.

By the way again, any comments on ncdf vs RNetCDF? I just couldn't like the 
inconsistent naming in ncdf (put.var.ncdf, att.put.ncdf, dim.get.ncdf, 
get.var.ncdf, ...), otherwise its very recent update would have attracted me to it. 
Anyway these are not big packages and should be all fine.

Thanks for the help!

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