ncdf4

Package: ncdf4
Version: 1.15
Date: 2015-12-03
Title: Interface to Unidata netCDF (Version 4 or Earlier) Format Data
Files
Author: David Pierce <dpierce@ucsd.edu>
Maintainer: David Pierce <dpierce@ucsd.edu>
Description: Provides a high-level R interface to
data files written using Unidata's
netCDF library (version 4 or earlier), which are binary data files that are portable
across platforms and include metadata information in addition to the data sets.
Using this package, netCDF files (either version 4
or "classic" version 3) can be opened and data sets read in easily.
It is also easy to create new netCDF dimensions, variables, and files,
in either version 3 or 4 format, and manipulate existing netCDF files.
This package replaces the former ncdf package, which only worked with
netcdf version 3 files. For various reasons the names of the functions
have had to be changed from the names in the ncdf package. The old ncdf package is still
available at the URL given below, if you need to have backward compatibility.
It should be possible to have both the ncdf and ncdf4 packages installed
simultaneously without a problem.
However, the ncdf package does not provide an interface for netcdf version 4 files.
SystemRequirements: netcdf library version 4.1 or later
License: GPL (>= 3)
URL: http://cirrus.ucsd.edu/~pierce/ncdf
NeedsCompilation: yes
Packaged: 2015-12-03 19:37:16 UTC; pierce
Repository: CRAN
Date/Publication: 2015-12-04 08:40:41

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ncdf4' ...
** package 'ncdf4' successfully unpacked and MD5 sums checked
configure.ac: starting
checking for nc-config... yes
Using nc-config: nc-config
Output of nc-config --all:

This netCDF 4.4.0 has been built with the following features: 

  --cc        -> /usr/bin/x86_64-linux-gnu-gcc
  --cflags    -> -I/usr/include -I/usr/include/hdf5/serial
  --libs      -> -L/usr/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -lhdf5_hl -lhdf5 -lpthread -lsz -lz -ldl -lm -lcurl

  --has-c++   -> no
  --cxx       -> 
  --has-c++4  -> no
  --cxx4      -> 

  --fc        -> 
  --fflags    -> 
  --flibs     -> 
  --has-f90   -> no

  --has-dap   -> yes
  --has-nc2   -> yes
  --has-nc4   -> yes
  --has-hdf5  -> yes
  --has-hdf4  -> no
  --has-pnetcdf-> no
  --has-szlib -> no

  --prefix    -> /usr
  --includedir-> /usr/include
  --version   -> netCDF 4.4.0

---
netcdf.m4: about to set rpath, here is source string: >-L/usr/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -lhdf5_hl -lhdf5 -lpthread -lsz -lz -ldl -lm -lcurl<
netcdf.m4: final rpath:   -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial
Netcdf library version: netCDF 4.4.0
Netcdf library has version 4 interface present: yes
Netcdf library was compiled with C compiler: /usr/bin/x86_64-linux-gnu-gcc
configure: creating ./config.status
config.status: creating src/Makevars
 
**********************  Results of ncdf4 package configure *******************
 
netCDF v4 CPP flags      = -I/usr/include -I/usr/include/hdf5/serial
netCDF v4 LD flags       =   -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial -L/usr/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -lhdf5_hl -lhdf5 -lpthread -lsz -lz -ldl -lm -lcurl 
netCDF v4 runtime path   =   -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial
 
netCDF C compiler used   = /usr/bin/x86_64-linux-gnu-gcc
R      C compiler used   = gcc -g -O2
 
******************************************************************************
 
netcdf cc arg1: /usr/bin/x86_64-linux-gnu-gcc  R cc arg1: gcc R_IS_GCC: 1 R_IS_CLANG: 0 NETCDF_IS_GCC: 1 NETCDF_IS_CLANG: 0  emit_warning: 0
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include -I/usr/include/hdf5/serial -I/usr/local/include    -fpic  -g -O2  -c ncdf.c -o ncdf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include -I/usr/include/hdf5/serial -I/usr/local/include    -fpic  -g -O2  -c ncdf2.c -o ncdf2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include -I/usr/include/hdf5/serial -I/usr/local/include    -fpic  -g -O2  -c ncdf3.c -o ncdf3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include -I/usr/include/hdf5/serial -I/usr/local/include    -fpic  -g -O2  -c src_ncdf4.c -o src_ncdf4.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o ncdf4.so ncdf.o ncdf2.o ncdf3.o src_ncdf4.o -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial -L/usr/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -lhdf5_hl -lhdf5 -lpthread -lsz -lz -ldl -lm -lcurl -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/ncdf4/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ncdf4'
    finding HTML links ... done
    ancvar_put                              html  
    nc_close                                html  
    nc_create                               html  
    nc_enddef                               html  
    nc_open                                 html  
    nc_redef                                html  
    nc_sync                                 html  
    nc_version                              html  
    ncatt_get                               html  
    ncatt_put                               html  
    ncdf4-internal                          html  
    ncdf4-package                           html  
Rd warning: /tmp/RtmpGkbpBT/R.INSTALL507978216f31/ncdf4/man/ncdf4-package.Rd:57: missing file link 'ncvar_put'
Rd warning: /tmp/RtmpGkbpBT/R.INSTALL507978216f31/ncdf4/man/ncdf4-package.Rd:74: missing file link 'ncvar_put'
    ncdim_def                               html  
    ncvar_add                               html  
    ncvar_change_missval                    html  
    ncvar_def                               html  
Rd warning: /tmp/RtmpGkbpBT/R.INSTALL507978216f31/ncdf4/man/ncvar_def.Rd:67: missing file link 'ncvar_put'
Rd warning: /tmp/RtmpGkbpBT/R.INSTALL507978216f31/ncdf4/man/ncvar_def.Rd:100: missing file link 'ncvar_put'
    ncvar_get                               html  
Rd warning: /tmp/RtmpGkbpBT/R.INSTALL507978216f31/ncdf4/man/ncvar_get.Rd:77: missing file link 'ncvar_put'
    ncvar_rename                            html  
    print.ncdf4                             html  
** building package indices
** testing if installed package can be loaded
* DONE (ncdf4)
Making 'packages.html' ... done