Skip to content

Install rgdal, lazy loading error

3 messages · Ben Weinstein, Dirk Eddelbuettel, Paul Johnson

Original
Dirk Eddelbuettel
#
On 17 October 2012 at 14:19, Ben Weinstein wrote:
| Hi all,
| 
| I have successfully made and installed both gdal, and proj.4, but still
| cannot get rgdal to be installed in R. I think i'm very close. I do not
| have root access, if that matters, i've installed everything locally. I'm
| using debian on a beowulf cluster.
| 
| I call:
| 
| install.packages("rgdal", .libPaths()[1], configure.args =
| "--with-gdal-config=/usr/local/pkg/gdal/bin/gdal-config
| --with-proj-include=/nfs/user08/bw4sz/include
| --with-proj-lib=/nfs/user08/bw4sz/lib")
| 
| i've defeated the gdal-config and the api_proj.h file errors that have
| plagued others. Now i believe i've run into a smaller problem.
| 
| The package downloads and installs but it fails the lazy loading test
| 
| 
| ** R
| ** inst
| ** preparing package for lazy loading
| ** help
| *** installing help indices
| ** building package indices ...
| ** testing if installed package can be loaded
| Error in dyn.load(file, DLLpath = DLLpath, ...) :
|   unable to load shared object
| '/nfs/user08/bw4sz/library/rgdal/libs/rgdal.so':
|   libgdal.so.1: cannot open shared object file: No such file or directory

The dynamic linker thinks there should be a file (or a softlink) resolve
libgdal.so.1, yet there is none.

You need to address that issue.

Dirk

| Error: loading failed
| 
| with the R.Version()
| 
| > R.Version()
| $platform
| [1] "x86_64-unknown-linux-gnu"
| 
| $arch
| [1] "x86_64"
| 
| $os
| [1] "linux-gnu"
| 
| $system
| [1] "x86_64, linux-gnu"
| 
| $status
| [1] ""
| 
| $major
| [1] "2"
| 
| $minor
| [1] "14.2"
| 
| $year
| [1] "2012"
| 
| $month
| [1] "02"
| 
| $day
| [1] "29"
| 
| $`svn rev`
| [1] "58522"
| 
| $language
| [1] "R"
| 
| $version.string
| [1] "R version 2.14.2 (2012-02-29)"
| 
| Any thoughts are appreciated,
| 
| Best,
| 
| ben
| 
| please forgive cross-posting on R-sig geo for those who subscribe to both.
| 
| Ben Weinstein
| Graduate Student
| Ecology and Evolution
| Stony Brook University
| 
| http://life.bio.sunysb.edu/~bweinste/index.html
| 
| 	[[alternative HTML version deleted]]
| 
| _______________________________________________
| R-SIG-Debian mailing list
| R-SIG-Debian at r-project.org
| https://stat.ethz.ch/mailman/listinfo/r-sig-debian
7 days later
Paul Johnson
# 
Greetings

On Wed, Oct 17, 2012 at 1:19 PM, Ben Weinstein
<benweinstein2010 at gmail.com> wrote:
Suppose before you try the build, you add that "libs" directory to the
dynamic linker path, such as

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/nfs/user08/bw4sz/library/rgdal/libs/rgdal.so

Then try the build.

If that works, then you have a sortof classic "user in a Unix
environment" problem.  Either you need a system administrator to
install that library and the devel stuff for it in the usual places,
or you need to do some work to add the libs folder to your
LD_LIBRARY_PATH.

What do you think?

pj