install sf failed I have libgdal.so.30 instead of libgdal.so.29 (ubunutu)

[defuneste]

Hello,

I am on Ubuntu 20.04.4 LTS. I followed this instruction:

sudo add-apt-repository ppa:ubuntugis/ubuntugis-unstable
sudo apt-get update
sudo apt-get install libudunits2-dev libgdal-dev libgeos-dev libproj-dev 

Then I get:

gdal-config --version
# 3.4.0
proj
#Rel. 8.2.0, November 1st, 2021
#usage: proj [-bdeEfiIlmorsStTvVwW [args]] [+opt[=arg] ...] [file ...]

It seems good then I try to install sf:

library(remotes)
install_github("r-spatial/sf")

I get this error message:

checking GDAL: checking whether PROJ is available fur running:... ./gdal_proj: error while loading shared libraries: libgdal.so.29: cannot open shared object file: No such file or directory
no
configure: error: OGRCoordinateTransformation() does not return a coord.trans: PROJ not available?

I think libgdal should be the 29:

dpkg -l | grep gdal  
# ii  gdal-data                                  3.4.0+dfsg-1~focal0                   all          Geospatial Data Abstraction Library - Data files
# ii  libgdal-dev                                3.4.0+dfsg-1~focal0                   amd64        Geospatial Data Abstraction Library - Development files
# ii  libgdal30                                  3.4.0+dfsg-1~focal0                   amd64        Geospatial Data Abstraction Library

If I try to remove the ppa and retry.

[edzer]

If I try to remove the ppa and retry.

please finish issues before you send them. It sounds like you have multiple versions of one of the libraries, possibly GDAL, on your system, installed. That is not going to work.

[defuneste]

I think I have only one GDAL: see `dpkg -l |grep gdal. Anaconda have some version of gdal but it should not matter?

I started with what I thought to be a clean setup removing, every possible GDAL and PROJ that I could find.

I used:

sudo apt remove libgdal-dev
sudo apt remove libproj-dev
sudo apt remove gdal-bin
sudo apt autoremove

and checked package with:

dpkg -l | grep gdal
dpkg -l | grep proj

Should I do more?

please finish issues before you send them.

Sorry I will try.

I have then removed GDAL and PROJ and checked with "dpkg -l". Removed the unstable unbutugis PPA and added the stable one.

sudo apt-get install libudunits2-dev libgdal-dev libgeos-dev libproj-dev 
proj
#Rel. 7.2.1, January 1st, 2021
#usage: proj [-bdeEfiIlmorsStTvVwW [args]] [+opt[=arg] ...] [file ...]
gdal-config --version
# 3.3.2

Then in R:

library(remotes)
install_github("r-spatial/sf")

it passes this check now:

checking GDAL: checking whether PROJ is available fur running:... yes

but later I have an other error:

Error: package or namespace load failed for ‘sf’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/home/defuneste/R/x86_64-pc-linux-gnu-library/4.1/00LOCK-sf/00new/sf/libs/sf.so':
libproj.so.22: cannot open shared object file: No such file or directory
Error: loading failed

It sounds like you have multiple versions of one of the libraries, possibly GDAL, on your system, installed.

I will investigated that a bit more and I will read good documentation on how to be sure package and dependencies can be manage well.

[edzer]

libproj.so.22: cannot open shared object file: No such file or directory

might indicate duplicate PROJ installations.

[defuneste]

Thanks!

It worked after:

• a reboot
• I used CRAN instead of Github
• I was on ESS instead of Rstudio

No idea which one of those changes make it works. (should I close or do you close the issue?)