[R-sig-Geo] Trouble installing rgdal

[Roger Bivand]

On Thu, 2 Jul 2020, Thomas Adams wrote:

> Hi Bennet!
>
> Thank you for your help, but I get the same error...

Tom,

Once rgdal revision 1029 completes building (check first) on:

https://r-forge.r-project.org/R/?group_id=884

please re-try. The missing function is not in the GDAL 3.0.0 headers, but 
is in the 3.0.1 headers. I've modified the check so as not to try for just 
>= 3 to >= 3.0.1.

Roger

>
> Tom
>
> On Thu, Jul 2, 2020 at 2:01 PM Bennet Fauber <bennet using umich.edu> wrote:
>
>> You might try this
>>
>> install.packages("rgdal", "/sw/arcts/centos7/Rgeospatial/062020",
>> repos="http://R-Forge.R-project.org")
>>
>> as there have been recent patches to rgdal that might help that have
>> been incorporated there.
>>
>>
>> On Thu, Jul 2, 2020 at 1:47 PM Thomas Adams <tea3rd using gmail.com> wrote:
>>>
>>> Hi all,
>>>
>>> I have searched the internet and have spent a few days trying to get to
>> the
>>> problem when I try to install rgdal into my Ubuntu 18.04 system. I have
>>> done this many times previously, but cannot seem to track down what I am
>>> doing wrong now. I have tried a forced install from sources with and
>>> without dependencies. Below is what I get. Any help is appreciated.
>>>
>>> Tom
>>>
>>>> install.packages("rgdal")
>>> Installing package into ‘/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0’
>>> (as ‘lib’ is unspecified)
>>> trying URL 'https://cran.case.edu/src/contrib/rgdal_1.5-12.tar.gz'
>>> Content type 'application/x-gzip' length 2302403 bytes (2.2 MB)
>>> ==================================================
>>> downloaded 2.2 MB
>>>
>>> * installing *source* package ‘rgdal’ ...
>>> ** package ‘rgdal’ successfully unpacked and MD5 sums checked
>>> ** using staged installation
>>> configure: R_HOME: /usr/local/lib/R
>>> configure: CC: gcc
>>> configure: CXX: g++ -std=gnu++11
>>> configure: CXX11 is: g++, CXX11STD is: -std=gnu++11
>>> configure: CXX is: g++ -std=gnu++11
>>> configure: C++11 support available
>>> configure: rgdal: 1.5-12
>>> checking for /usr/bin/svnversion... yes
>>> configure: svn revision: 1018
>>> checking for gdal-config... /usr/local/bin/gdal-config
>>> checking gdal-config usability... yes
>>> configure: GDAL: 3.0.0
>>> checking GDAL version >= 1.11.4... yes
>>> checking GDAL version <= 2.5 or >= 3.0... yes
>>> checking GDAL: linking with --libs only... yes
>>> checking GDAL: gdal-config data directory readable... yes
>>> checking GDAL: /usr/local/share/gdal/stateplane.csv readable... yes
>>> configure: pkg-config proj exists, will use it
>>> configure: PROJ version: 6.1.0
>>> configure: PROJ CPP flags: -DPROJ_H_API -I/usr/local/include
>>> configure: PROJ LIBS: -L/usr/local/lib -lproj
>>> checking PROJ header API:... yes
>>> checking whether the C++ compiler works... yes
>>> checking for C++ compiler default output file name... a.out
>>> checking for suffix of executables...
>>> checking whether we are cross compiling... no
>>> checking for suffix of object files... o
>>> checking whether we are using the GNU C++ compiler... yes
>>> checking whether g++ -std=gnu++11 accepts -g... yes
>>> checking how to run the C++ preprocessor... g++ -std=gnu++11 -E
>>> checking for grep that handles long lines and -e... /bin/grep
>>> checking for egrep... /bin/grep -E
>>> checking for ANSI C header files... yes
>>> checking for sys/types.h... yes
>>> checking for sys/stat.h... yes
>>> checking for stdlib.h... yes
>>> checking for string.h... yes
>>> checking for memory.h... yes
>>> checking for strings.h... yes
>>> checking for inttypes.h... yes
>>> checking for stdint.h... yes
>>> checking for unistd.h... yes
>>> checking proj.h usability... yes
>>> checking proj.h presence... yes
>>> checking for proj.h... yes
>>> checking for proj_context_create in -lproj... yes
>>> checking Using GDAL < 3 with PROJ >= 6... no
>>> checking PROJ version >= 4.8.0... yes
>>> checking PROJ: proj.db found and readable... yes
>>> configure: Package CPP flags:  -I/usr/local/include -I/usr/local/include
>>> -DPROJ_H_API
>>> configure: Package LIBS:  -L/usr/local/lib -lgdal -L/usr/local/lib -lproj
>>> configure: creating ./config.status
>>> config.status: creating src/Makevars
>>> ** libs
>>> g++ -std=gnu++11 -I"/usr/local/lib/R/include" -DNDEBUG
>> -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c OGR_write.cpp -o OGR_write.o
>>> g++ -std=gnu++11 -I"/usr/local/lib/R/include" -DNDEBUG
>> -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c gdal-bindings.cpp -o
>>> gdal-bindings.o
>>> gcc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c init.c -o init.o
>>> gcc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c inverser.c -o inverser.o
>>> gcc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c local_stubs.c -o local_stubs.o
>>> g++ -std=gnu++11 -I"/usr/local/lib/R/include" -DNDEBUG
>> -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c ogr_geom.cpp -o ogr_geom.o
>>> gcc -I"/usr/local/lib/R/include" -DNDEBUG -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c ogr_polygons.c -o ogr_polygons.o
>>> g++ -std=gnu++11 -I"/usr/local/lib/R/include" -DNDEBUG
>> -I/usr/local/include
>>> -I/usr/local/include -DPROJ_H_API
>>> -I'/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/sp/include'
>>> -I/usr/local/include   -fpic  -g -O2  -c ogr_proj.cpp -o ogr_proj.o
>>> ogr_proj.cpp: In function ‘SEXPREC* R_GDAL_OSR_PROJ()’:
>>> ogr_proj.cpp:163:9: error: ‘OSRGetPROJVersion’ was not declared in this
>>> scope
>>>          OSRGetPROJVersion(&pnMajor, &pnMinor, &pnPatch);
>>>          ^~~~~~~~~~~~~~~~~
>>> ogr_proj.cpp:163:9: note: suggested alternative: ‘OSRProjVersion’
>>>          OSRGetPROJVersion(&pnMajor, &pnMinor, &pnPatch);
>>>          ^~~~~~~~~~~~~~~~~
>>>          OSRProjVersion
>>> /usr/local/lib/R/etc/Makeconf:176: recipe for target 'ogr_proj.o' failed
>>> make: *** [ogr_proj.o] Error 1
>>> ERROR: compilation failed for package ‘rgdal’
>>> * removing ‘/home/teaiii/R/x86_64-pc-linux-gnu-library/4.0/rgdal’
>>>
>>> The downloaded source packages are in
>>> ‘/tmp/RtmpNkdFOf/downloaded_packages’
>>> Warning message:
>>> In install.packages("rgdal") :
>>>   installation of package ‘rgdal’ had non-zero exit status
>>>
>>>
>>> --
>>> Thomas E Adams, III
>>> 1724 Sage Lane
>>> Blacksburg, VA 24060
>>> tea3rd using gmail.com (personal)
>>> tea using terrapredictions.org (work)
>>>
>>> 1 (513) 739-9512 (cell)
>>>
>>>         [[alternative HTML version deleted]]
>>>
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>>
>
>
>

-- 
Roger Bivand
Department of Economics, Norwegian School of Economics,
Helleveien 30, N-5045 Bergen, Norway.
voice: +47 55 95 93 55; e-mail: Roger.Bivand using nhh.no
https://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en