* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘gdalcubes’ ...
** package ‘gdalcubes’ successfully unpacked and MD5 sums checked
** using staged installation
configure: CC: gcc-13
configure: CXX: g++-13 -std=gnu++11
checking for gdal-config... /usr/bin/gdal-config
checking gdal-config usability... yes
configure: GDAL: 3.8.4
checking GDAL version >= 2.0.1... yes
checking GDAL version != 3.6.0... 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 the compiler supports GNU C++... yes
checking whether g++-13 -std=gnu++11 accepts -g... yes
checking for g++-13 -std=gnu++11 option to enable C++11 features... none needed
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for gdal.h... yes
checking GDAL: linking with --libs only... yes
checking GDAL: /usr/share/gdal/pcs.csv readable... no
checking GDAL: checking whether PROJ is available for linking:... yes
checking GDAL: checking whether PROJ is available fur running:... yes
configure: GDAL: 3.8.4
configure: pkg-config proj exists, will use it
configure: using proj.h.
configure: PROJ: 9.3.1
checking PROJ: checking whether PROJ and sqlite3 are available for linking:... yes
checking for nc-config... yes
netcdf.m4: about to set rpath, here is source string: >-L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf<
netcdf.m4: final rpath: -Wl,-rpath,/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial
Netcdf library version: netCDF 4.9.2
Netcdf library has version 4 interface present: yes
Netcdf library was compiled with C compiler: /usr/bin/cc
configure: Package CPP flags: -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM
configure: Package LIBS: -L/usr/lib/x86_64-linux-gnu -lgdal -lproj -Wl,-rpath,/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -Wl,-O1
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpERg8pR/R.INSTALL3da62676bdb001/gdalcubes/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/aggregate_time.cpp -o gdalcubes/src/aggregate_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/aggregate_space.cpp -o gdalcubes/src/aggregate_space.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/apply_pixel.cpp -o gdalcubes/src/apply_pixel.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/config.cpp -o gdalcubes/src/config.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/collection_format.cpp -o gdalcubes/src/collection_format.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/crop.cpp -o gdalcubes/src/crop.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/datetime.cpp -o gdalcubes/src/datetime.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/filesystem.cpp -o gdalcubes/src/filesystem.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/utils.cpp -o gdalcubes/src/utils.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/cube.cpp -o gdalcubes/src/cube.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/cube_factory.cpp -o gdalcubes/src/cube_factory.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/error.cpp -o gdalcubes/src/error.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/extract_geom.cpp -o gdalcubes/src/extract_geom.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/image_collection.cpp -o gdalcubes/src/image_collection.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/image_collection_cube.cpp -o gdalcubes/src/image_collection_cube.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/image_collection_ops.cpp -o gdalcubes/src/image_collection_ops.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/join_bands.cpp -o gdalcubes/src/join_bands.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/ncdf_cube.cpp -o gdalcubes/src/ncdf_cube.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/select_time.cpp -o gdalcubes/src/select_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/reduce_time.cpp -o gdalcubes/src/reduce_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/reduce_space.cpp -o gdalcubes/src/reduce_space.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/window_space.cpp -o gdalcubes/src/window_space.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/window_time.cpp -o gdalcubes/src/window_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/select_bands.cpp -o gdalcubes/src/select_bands.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/slice_time.cpp -o gdalcubes/src/slice_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/slice_space.cpp -o gdalcubes/src/slice_space.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/filter_pixel.cpp -o gdalcubes/src/filter_pixel.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/filter_geom.cpp -o gdalcubes/src/filter_geom.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/fill_time.cpp -o gdalcubes/src/fill_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/rename_bands.cpp -o gdalcubes/src/rename_bands.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/simple_cube.cpp -o gdalcubes/src/simple_cube.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/stream.cpp -o gdalcubes/src/stream.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/stream_reduce_time.cpp -o gdalcubes/src/stream_reduce_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/stream_reduce_space.cpp -o gdalcubes/src/stream_reduce_space.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/stream_apply_pixel.cpp -o gdalcubes/src/stream_apply_pixel.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/stream_apply_time.cpp -o gdalcubes/src/stream_apply_time.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/view.cpp -o gdalcubes/src/view.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/dummy.cpp -o gdalcubes/src/dummy.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/warp.cpp -o gdalcubes/src/warp.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c gdalcubes/src/external/tinyexpr/tinyexpr.c -o gdalcubes/src/external/tinyexpr/tinyexpr.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/external/tiny-process-library/process.cpp -o gdalcubes/src/external/tiny-process-library/process.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/external/tiny-process-library/process_unix.cpp -o gdalcubes/src/external/tiny-process-library/process_unix.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes/src/external/json11/json11.cpp -o gdalcubes/src/external/json11/json11.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c multiprocess.cpp -o multiprocess.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c error.cpp -o error.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gdalcubes.cpp -o gdalcubes.o
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -DHAVE_PROJ_H -I/usr/include/gdal -I/usr/include -I/usr/include/hdf5/serial -DR_PACKAGE -DGDALCUBES_NO_SWARM -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o gdalcubes.so gdalcubes/src/aggregate_time.o gdalcubes/src/aggregate_space.o gdalcubes/src/apply_pixel.o gdalcubes/src/config.o gdalcubes/src/collection_format.o gdalcubes/src/crop.o gdalcubes/src/datetime.o gdalcubes/src/filesystem.o gdalcubes/src/utils.o gdalcubes/src/cube.o gdalcubes/src/cube_factory.o gdalcubes/src/error.o gdalcubes/src/extract_geom.o gdalcubes/src/image_collection.o gdalcubes/src/image_collection_cube.o gdalcubes/src/image_collection_ops.o gdalcubes/src/join_bands.o gdalcubes/src/ncdf_cube.o gdalcubes/src/select_time.o gdalcubes/src/reduce_time.o gdalcubes/src/reduce_space.o gdalcubes/src/window_space.o gdalcubes/src/window_time.o gdalcubes/src/select_bands.o gdalcubes/src/slice_time.o gdalcubes/src/slice_space.o gdalcubes/src/filter_pixel.o gdalcubes/src/filter_geom.o gdalcubes/src/fill_time.o gdalcubes/src/rename_bands.o gdalcubes/src/simple_cube.o gdalcubes/src/stream.o gdalcubes/src/stream_reduce_time.o gdalcubes/src/stream_reduce_space.o gdalcubes/src/stream_apply_pixel.o gdalcubes/src/stream_apply_time.o gdalcubes/src/view.o gdalcubes/src/dummy.o gdalcubes/src/warp.o gdalcubes/src/external/tinyexpr/tinyexpr.o gdalcubes/src/external/tiny-process-library/process.o gdalcubes/src/external/tiny-process-library/process_unix.o gdalcubes/src/external/json11/json11.o multiprocess.o error.o gdalcubes.o RcppExports.o -L/usr/lib/x86_64-linux-gnu -lgdal -lproj -Wl,-rpath,/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial -L/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lnetcdf -Wl,-O1 -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpERg8pR/R.INSTALL3da62676bdb001/gdalcubes/src'
make[1]: Entering directory '/tmp/RtmpERg8pR/R.INSTALL3da62676bdb001/gdalcubes/src'
make[1]: Leaving directory '/tmp/RtmpERg8pR/R.INSTALL3da62676bdb001/gdalcubes/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-gdalcubes/00new/gdalcubes/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘gdalcubes’
finding HTML links ... done
add_collection_format html
add_images html
aggregate_space html
aggregate_time html
animate html
apply_pixel html
apply_pixel.array html
apply_pixel.cube html
apply_time html
apply_time.array html
apply_time.cube html
as.data.frame.cube html
as_array html
as_json html
bands html
chunk_apply html
collection_formats html
create_image_collection html
crop html
cube_view html
dim.cube html
dimension_bounds html
dimension_values html
dimensions html
dot-copy_cube html
extent html
extract_geom html
fill_time html
filter_geom html
filter_pixel html
gdalcubes html
gdalcubes_gdal_has_geos html
gdalcubes_gdalformats html
gdalcubes_gdalversion html
gdalcubes_options html
gdalcubes_selection html
gdalcubes_set_gdal_config html
image_collection html
image_mask html
join_bands html
json_cube html
memsize html
names.cube html
nbands html
ncdf_cube html
nt html
nx html
ny html
pack_minmax html
plot.cube html
predict.cube html
print.cube html
print.cube_view html
print.image_collection html
proj4 html
raster_cube html
read_chunk_as_array html
reduce_space html
reduce_space.array html
reduce_space.cube html
reduce_time html
reduce_time.array html
reduce_time.cube html
rename_bands html
select_bands html
select_time html
size html
slice_space html
slice_time html
srs html
st_as_stars.cube html
stac_image_collection html
stack_cube html
window_space html
window_time html
write_chunk_from_array html
write_ncdf html
write_tif html
** 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 (gdalcubes)