[R-sig-Geo] rgdal 1.1-3 compilation: error of ogrsource.cpp
Roger Bivand
Roger.Bivand at nhh.no
Sat Jan 30 17:33:56 CET 2016
On Sat, 30 Jan 2016, Bede-Fazekas Ákos wrote:
> Dear List,
> please let me know what I'm doing wrong. Installing package rgdal 1.1-3 with
> install.packages("rgdal") fails on Ubuntu 14 (gdal version: 2.0.0) with this
> error message during the compilation:
> *ogrsource.cpp:413:10: error: ‘OFTInteger64’ was not declared in this scope.*
>
> The gdal-version info, verbose output of package installation and
> sessionInfo() is provided after my signature.
Thanks for a clear report. The GDAL version is declared as 2.0.0. The
released 2.0.* implement RFC 31:
(https://trac.osgeo.org/gdal/wiki/rfc31_ogr_64)
using long integers for FIDs and allowing them as field values. Since the
GDAL you are using declares itself as 2.*, the code forks to take
advantage of the new capability.
How did you install GDAL? Is it possible that the version you have is
pre-release? The development trunk was named 2.0.0 for quite a long time,
but implementations of changes happened at different times along the way?
Is it possible that you have mixed (multiple) GDAL installations, with 1.*
headers and 2.0 gdal-config?
Roger
> However the R version is the latest (3.2.3), installation of the package
> failed with similar error message on my previously used R version (3.0.2),
> and therefore I think that the problem is nothing to do with R.
> Removing and reinstalling libgdal1-dev, libproj-dev, gdal-bin does not solve
> the problem. Running R as root user produce similar error.
>
> Any help is gratefully appreciated,
> Ákos Bede-Fazekas
> Hungarian Academy of Sciences
>
>
> ----------------
> gdal-config --version
> 2.0.0
>
> ogr2ogr --version
> GDAL 2.0.0dev, released 2014/04/16
>
> ----------------
> configure: CC: gcc -std=gnu99
> configure: CXX: g++
> configure: rgdal: 1.1-3
> checking for /usr/bin/svnversion... yes
> configure: svn revision: 594
> checking for gdal-config... /usr/local/bin/gdal-config
> checking gdal-config usability... yes
> configure: GDAL: 2.0.0
> checking GDAL version >= 1.6.3... yes
> configure: experimental conditional use of GDAL2
> checking for gcc... gcc -std=gnu99
> 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 gcc -std=gnu99 accepts -g... yes
> checking for gcc -std=gnu99 option to accept ISO C89... none needed
> checking how to run the C preprocessor... gcc -std=gnu99 -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 gdal.h usability... yes
> checking gdal.h presence... yes
> checking for gdal.h... yes
> checking gdal: linking with --libs only... yes
> checking GDAL: /usr/local/share/gdal/pcs.csv readable... yes
> checking proj_api.h usability... yes
> checking proj_api.h presence... yes
> checking for proj_api.h... yes
> checking for pj_init_plus in -lproj... yes
> configure: PROJ.4 version: 4.8.0
> checking PROJ.4: epsg found and readable... yes
> checking PROJ.4: conus found and readable... yes
> configure: Package CPP flags: -I/usr/local/include
> configure: Package LIBS: -L/usr/local/lib -lgdal -lproj
> configure: creating ./config.status
> config.status: creating src/Makevars
> ** libs
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c OGR_write.cpp -o OGR_write.o
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c gdal-bindings.cpp -o gdal-bindings.o
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c local_stubs.c -o local_stubs.o
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c ogr_geom.cpp -o ogr_geom.o
> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c ogr_polygons.c -o ogr_polygons.o
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c ogr_proj.cpp -o ogr_proj.o
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c ogrdrivers.cpp -o ogrdrivers.o
> g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I/usr/local/include
> -I"/usr/local/lib/R/site-library/sp/include" -fpic -g -O2
> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
> -D_FORTIFY_SOURCE=2 -g -c ogrsource.cpp -o ogrsource.o
> ogrsource.cpp: In function ‘SEXPREC* ogrReadColumn(OGRLayer*, SEXP, int,
> int)’:
> ogrsource.cpp:413:10: error: ‘OFTInteger64’ was not declared in this scope
> case OFTInteger64:
> ^
> ogrsource.cpp:470:12: error: ‘OFTInteger64’ was not declared in this scope
> case OFTInteger64:
> ^
> ogrsource.cpp:476:45: error: ‘class OGRFeature’ has no member named
> ‘GetFieldAsInteger64’
> GIntBig nVal64 = poFeature->GetFieldAsInteger64(iField);
> ^
> ogrsource.cpp: In function ‘SEXPREC* ogrReadListColumn(OGRLayer*, SEXP, int,
> int, int)’:
> ogrsource.cpp:575:10: error: ‘OFTInteger64List’ was not declared in this
> scope
> case OFTInteger64List:
> ^
> ogrsource.cpp:618:14: error: ‘OFTInteger64List’ was not declared in this
> scope
> case OFTInteger64List:
> ^
> ogrsource.cpp:619:28: error: ‘union OGRField’ has no member named
> ‘Integer64List’
> nlist = psField->Integer64List.nCount;
> ^
> ogrsource.cpp:626:32: error: ‘union OGRField’ has no member named
> ‘Integer64List’
> psField->Integer64List.paList[k]);
> ^
> ogrsource.cpp:629:43: error: ‘union OGRField’ has no member named
> ‘Integer64List’
> GIntBig nVal64 = psField->Integer64List.paList[k];
> ^
> make: *** [ogrsource.o] Error 1
> ERROR: compilation failed for package ‘rgdal’
> * removing ‘/usr/local/lib/R/site-library/rgdal’
>
> The downloaded source packages are in
> ‘/tmp/RtmpcN1Gpn/downloaded_packages’
> Warning message:
> In install.packages("rgdal") :
> installation of package ‘rgdal’ had non-zero exit status
>
>
> ----------------
>> sessionInfo()
> R version 3.2.3 (2015-12-10)
> Platform: x86_64-pc-linux-gnu (64-bit)
> Running under: Ubuntu 14.04.3 LTS
>
> locale:
> [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
> [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
> [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
> [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
> [9] LC_ADDRESS=C LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
>
> loaded via a namespace (and not attached):
> [1] tools_3.2.3
>
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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; fax +47 55 95 91 00
e-mail: Roger.Bivand at nhh.no
http://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en
http://depsy.org/person/434412
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