Install on Ubuntu 24.04 failed

[Marc-Girondot]

System: Ubuntu 24.04
R 4.4.1

In R:

devtools::install_github("thomasp85/transformr")

It returns an error (all the logs are at the end of this report):
Erreur dans dyn.load(file, DLLpath = DLLpath, ...) :
impossible de charger l'objet partagé '/usr/local/lib/R/site-library/sf/libs/sf.so' :
libgdal.so.32: cannot open shared object file: No such file or directory

Indeed, I have the last version of libgdal.so installed which is version 34:
mgirond@caretta:~$ cd /usr/lib/x86_64-linux-gnu
mgirond@caretta:/usr/lib/x86_64-linux-gnu$ ls -a libgdal*
libgdal.so libgdal.so.34 libgdal.so.34.3.8.4

Using a hack to symlink 34 to 32 does not work either:
sudo ln -s /usr/lib/x86_64-linux-gnu/libgdal.so /usr/lib/x86_64-linux-gnu/libgdal.so.32

will return:
Erreur dans dyn.load(file, DLLpath = DLLpath, ...) :
impossible de charger l'objet partagé '/usr/local/lib/R/site-library/sf/libs/sf.so' :
/usr/local/lib/R/site-library/sf/libs/sf.so: undefined symbol: _ZN18OGRGeometryFactory13createFromWkbEPKvP19OGRSpatialReferencePP11OGRGeometrym13OGRwkbVariant

All the logs are here:

devtools::install_github("thomasp85/transformr")
Downloading GitHub repo thomasp85/transformr@HEAD
── R CMD build ──────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/tmp/RtmpaALtTp/remotes85b47a4fd5/thomasp85-transformr-0f7262d/DESCRIPTION’ (361ms)
─ preparing ‘transformr’:
✔ checking DESCRIPTION meta-information
─ cleaning src
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘transformr_0.1.5.9000.tar.gz’

Installation du package dans ‘/usr/local/lib/R/site-library’
(car ‘lib’ n'est pas spécifié)

• installing source package ‘transformr’ ...
  ** using staged installation
  ** libs
  using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
  g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-avGvPq/r-base-4.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c align_rings.cpp -o align_rings.o
  g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-avGvPq/r-base-4.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cpp11.cpp -o cpp11.o
  g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-avGvPq/r-base-4.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fill_down.cpp -o fill_down.o
  g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-avGvPq/r-base-4.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sf_packing.cpp -o sf_packing.o
  g++ -std=gnu++17 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o transformr.so align_rings.o cpp11.o fill_down.o sf_packing.o -L/usr/lib/R/lib -lR
  installing to /usr/local/lib/R/site-library/00LOCK-transformr/00new/transformr/libs
  ** R
  ** byte-compile and prepare package for lazy loading
  Erreur dans dyn.load(file, DLLpath = DLLpath, ...) :
  impossible de charger l'objet partagé '/usr/local/lib/R/site-library/sf/libs/sf.so' :
  libgdal.so.32: cannot open shared object file: No such file or directory
  Appels : ... asNamespace -> loadNamespace -> library.dynam -> dyn.load
  Exécution arrêtée
  ERROR: lazy loading failed for package ‘transformr’
• removing ‘/usr/local/lib/R/site-library/transformr’
  Message d'avis :
  Dans i.p(...) :
  l'installation du package ‘/tmp/RtmpaALtTp/file85b705d3294/transformr_0.1.5.9000.tar.gz’ a eu un statut de sortie non nul

mgirond@caretta:~$ cd /usr/lib/x86_64-linux-gnu
mgirond@caretta:/usr/lib/x86_64-linux-gnu$ ls -a libgdal*
libgdal.so libgdal.so.34 libgdal.so.34.3.8.4

mgirond@caretta:/usr/lib/x86_64-linux-gnu$ sudo ln -s /usr/lib/x86_64-linux-gnu/libgdal.so /usr/lib/x86_64-linux-gnu/libgdal.so.32

Erreur dans dyn.load(file, DLLpath = DLLpath, ...) :
impossible de charger l'objet partagé '/usr/local/lib/R/site-library/sf/libs/sf.so' :
/usr/local/lib/R/site-library/sf/libs/sf.so: undefined symbol: _ZN18OGRGeometryFactory13createFromWkbEPKvP19OGRSpatialReferencePP11OGRGeometrym13OGRwkbVariant
Appels : ... asNamespace -> loadNamespace -> library.dynam -> dyn.load
Exécution arrêtée

[The-Dub]

Hi,

I got a similar issue installing transformr on a docker container.

• for error : unable to load shared object '/usr/local/lib/R/site-library/units/libs/units.so': libudunits2.so.0:
  then run in terminal sudo apt-get install -y libudunits2-dev

• for error : unable to load shared object '/usr/local/lib/R/site-library/sf/libs/sf.so': libproj.so.22:
  then run in terminal sudo apt-get install libproj-dev

• for error : unable to load shared object '/usr/local/lib/R/site-library/sf/libs/sf.so': libgdal.so.30:
  then run in terminal sudo apt-get install libudunits2-dev libgdal-dev libgeos-dev libproj-dev (similar as this issue)

hope this helps!