CODEWITHSUNDEEP
rlinuxdllcentosrgdal
Nikhail Arumoogum
Nikhail Arumoogum

Reputation: 173

Error loading rgdal

I have successfully installed the rgdal package along with the dependencies GDAL and Proj4. After installation I succesfully loaded the package in R with the library function. However after my most recent login when i type in the command library(rgdal) I get an error message:

Error: package or namespace load failed for 'rgdal' in dyn.load(file, 
DLLpath = DLLpath, ...):
unable to load shared object '/home/nikhail1/R/x86_64-pc-linux-gnu-
library/3.4/rgdal/libs/rgdal.so':
libgdal.so.20: cannot open shared object file: No such file or directory

I understand this means there is no link to the libgdal file but I am not sure how to fix it. libgdal.so.20 is in the system under /home/nikhail1/bin/gdal/lib/. The rgdal.so file is under the rgdal folder in the R library in my /home/nikhail1/ system. I do not have the authority to perform an ldconfig function on shared libraries (I am a novice). Does anyone have a function that could help me make the system recognize the pathway to libgdal.so.20. I am working on a Linux CentOs 6.9 system. I cannot perform any sudo apt-get, yum or brew functions.

Many thanks, Nikhail

Upvotes: 3

Views: 4517

Answers (2)

Momchill
Momchill

Reputation: 466

I've suffered quite a lot with gdal, rgdal and the proper setting of these in order to run rgdal functions in R. My bulletproof routine at the moment is the following:

UNINSTALL GDAL

sudo apt-get remove gdal-bin

Uninstall gdal-bin including dependent package

If you would like to remove gdal-bin and it's dependent packages which are no longer needed from Ubuntu,

sudo apt-get remove --auto-remove gdal-bin

Use Purging gdal-bin If you use with purge options to gdal-bin package all the configuration and dependent packages will be removed.

sudo apt-get purge gdal-bin

If you use purge options along with auto remove, will be removed everything regarding the package, It's really useful when you want to reinstall again.

sudo apt-get purge --auto-remove gdal-bin

Just to be sure if you've tried and failed many times to install it and it doesn't work, run all of these in sequential order.

INSTALL GDAL

sudo apt-get update
sudo apt-get install gdal-bin proj-bin libgdal-dev libproj-dev -y

INSTALL RGDAL

IN R:

install.packages('rgeos', type='source')

install.packages('rgdal', type='source')

Now everything should load and run smooth.

Upvotes: 1

Ralf Stubner
Ralf Stubner

Reputation: 26823

You can set LD_LIBRARY_PATH to include /home/nikhail1/bin/gdal/lib, i.e. in bash

export LD_LIBRARY_PATH="/home/nikhail1/bin/gdal/lib:$LD_LIBRARY_PATH"
ldd /home/nikhail1/R/x86_64-pc-linux-gnu-library/3.4/rgdal/libs/rgdal.so

should report libgdal.so.20 as been found. How to make this persistent depends on your desktop environment.

Upvotes: 6

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