[R-sig-Geo] Trouble installing rgdal

Thomas Adams te@3rd @end|ng |rom gm@||@com
Fri Jul 3 11:48:10 CEST 2020 

Thank you, Roger! I'll re-install without using
--configure-args=--with-proj_api="proj_api.h

Best,
Tom

On Fri, Jul 3, 2020 at 5:45 AM Roger Bivand <Roger.Bivand using nhh.no> wrote:

> On Thu, 2 Jul 2020, Thomas Adams wrote:
>
> > Roger,
> >
> > Thank you so much; after downloading the *.tar.gz file, the that did the
> > trick, using:
> >
> > sudo R CMD INSTALL --configure-args=--with-proj_api="proj_api.h"
> > rgdal_1.5-13.tar.gz
>
> Since you have GDAL: 3.0.0 and PROJ version: 6.1.0, you can drop
> --configure-args=--with-proj_api="proj_api.h", which is only needed if
> GDAL < 3 and PROJ >= 6. I'm uncertain how stable a system will be if GDAL
> >= 3 && PROJ >= 6 with this configure argument, as it is only a
> work-around for systems with GDAL < 3 and PROJ >= 6, and onnly tested in
> that setting.
>
> Thanks for reporting back!
>
> Roger
>
> >
> > Best regards!
> > Tom
> >
> >
> > On Thu, Jul 2, 2020 at 3:15 PM Roger Bivand <Roger.Bivand using nhh.no> wrote:
> >
> >> 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]]
> >>>>>
> >>>>> _______________________________________________
> >>>>> R-sig-Geo mailing list
> >>>>> R-sig-Geo using r-project.org
> >>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
> >>>>
> >>>
> >>>
> >>>
> >>
> >> --
> >> 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
> >
> >
> >
> >
>
> --
> 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



-- 
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)

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