Hi -
I am not sure if this is the right place for this question. I am fairly new
to R and still figuring out how to best manage packages. If this is not the
best venue for this question, please direct me elsewhere.
I am trying to install the ncdf4 R package using:
> install.packages('ncdf4')
This command, downloads the package, finds nc-config, appears to collect
all the correct settings, and appears to compile ncdf4 with no errors. But
after compiling, and running a few tests, the command fails during a test
to load the just-compiled ncdf4 libraries:
> install.packages('ncdf4')
...
skipping lots of output for downloading, nc-config, configuring, compiling,
testing...
...
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object
'/usr/local/Cellar/r/3.0.0/R.framework/Versions/3.0/Resources/library/ncdf4/libs/ncdf4.so':
dlopen(/usr/local/Cellar/r/3.0.0/R.framework/Versions/3.0/Resources/library/ncdf4/libs/ncdf4.so,
6): Symbol not found: _nc_close
Referenced from:
/usr/local/Cellar/r/3.0.0/R.framework/Versions/3.0/Resources/library/ncdf4/libs/ncdf4.so
Expected in: flat namespace
in
/usr/local/Cellar/r/3.0.0/R.framework/Versions/3.0/Resources/library/ncdf4/libs/ncdf4.so
Error: loading failed
Execution halted
ERROR: loading failed
* removing
/usr/local/Cellar/r/3.0.0/R.framework/Versions/3.0/Resources/library/ncdf4
Warning in install.packages :
installation of package ncdf4 had non-zero exit status
>
I am on a Mac, 10.8.2. I am using Homebrew to manage my packages. I have
the main netcdf library, 4.2.1.1, that is installed via Homebrew and has
been working fine in several other applications. Likewise I am using a
Homebrew version of R.
I am not sure how to keep trouble shooting this. I can provide more output
if necessary.
Thanks,
Tobey Carman
Spatial Ecology Lab,
University of Alaska Fairbanks
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