I tried installing rgdal_1.4.8.tar.gz with R-3.6.0 and there were a number of issues. Even though I have followed and installed according to “Compile gdal-2.4.3 on CentOS 7” I have the follow error.
Issue 1: Error: Proj.h not found in standard or given locations
..... ..... checking C++11 support for GDAL >= 2.3.0... yes checking GDAL version >= 1.11.4... yes checking GDAL version <= 2.5.0... yes checking gdal: linking with --libs only... yes checking GDAL: gdal-config data directory readable... yes checking GDAL: /usr/local/gdal-2.4.3/share/gdal/pcs.csv readable... yes checking proj_api.h presence and usability... no configure: error: proj_api.h not found in standard or given locations. ERROR: configuration failed for package ‘rgdal’ .....
Apparently R is not able to find inside pkconfig for proj.pc file. To resolve it, do the following to your ~.bashrc environment.
You can verify by using the command
# pkg-config proj --libs -L/usr/local/proj-5.2.0/lib -lproj
You can get more information via the thread proj_api.h not found in standard or given locations #1092
Issue 2: Proj_LIB Path Issues
..... checking proj_api.h presence and usability... yes checking PROJ version >= 4.8.0... yes checking projects.h presence and usability... yes checking PROJ.4: epsg found and readable... no Error: proj/epsg not found Either install missing proj support files, for example the proj-nad and proj-epsg RPMs on systems using RPMs, or if installed but not autodetected, set PROJ_LIB to the correct path, and if need be use the --with-proj-share= configure argument. ERROR: configuration failed for package ‘rgdal’ .....
To resolve the PROJ_LIB Issue
You can more information from https://github.com/r-spatial/lwgeom/issues/28
Finally, you should be able to compile rgdal_1.4-8.tar.gz with R-3.6.0
# R CMD INSTALL rgdal_1.4-8.tar.gz
..... ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rgdal) .....
Final Step: Testing and Verification
Load both gdal and proj libaries. Make sure you have compile gdal and proj libraries using the tutorial Compile gdal-2.4.3 on CentOS 7
$ module load proj/5.2.0 $ module load R/3.6.0 $ module load gdal/2.4.3
library(rgdal) Loading required package: sp rgdal: version: 1.4-8, (SVN revision 845) Geospatial Data Abstraction Library extensions to R successfully loaded Loaded GDAL runtime: GDAL 2.4.3, released 2019/10/28 Path to GDAL shared files: /usr/local/gdal-2.4.3/share/gdal GDAL binary built with GEOS: FALSE Loaded PROJ.4 runtime: Rel. 5.2.0, September 15th, 2018, [PJ_VERSION: 520] Path to PROJ.4 shared files: /usr/local/proj-5.2.0/share/proj Linking to sp version: 1.3-2