[R-sig-Geo] install rgdal, lazy loading error

[Roger Simon Bivand]

This is effectively impossible to replicate, as ony you have your hardware. My intuition suggests that since you cannot run ldconfig, which is reserved for root, you may need to set the path to the proj and gdal shared objects, using an LD PATH shell variable. How the worker nodes will then find the shared objects is also an issue. You could also attempt to build the rgdal binary static, by selecting appropriate settings for configure for GDAL. It can be done, but requires particular care in making sure that only drivers that can be built static are included. Please report back on your progress - also look for local help.

Hope this helps,

Roger

--
Roger Bivand
NHH Norwegian School of Economics
Helleveien 30, 5045 Bergen, Norway
Roger.Bivand at nhh.no


________________________________________
Fra: r-sig-geo-bounces at r-project.org [r-sig-geo-bounces at r-project.org] på vegne av Ben Weinstein [benweinstein2010 at gmail.com]
Sendt: 18. oktober 2012 2:40
To: r-sig-geo
Emne: [R-sig-Geo] install rgdal, lazy loading error

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".
This seems like an error with the rgdal version, since its looking for a
file libgdal.so.1 that no longer exists. Is this a versioning issue?


** 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
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 debian 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]]

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