* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘ICESat2VegR’ ... ** this is package ‘ICESat2VegR’ version ‘0.0.1’ ** package ‘ICESat2VegR’ successfully unpacked and MD5 sums checked ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.15.0... yes checking the operating system name... Linux 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++-16 -std=gnu++20 accepts -g... yes checking for g++-16 -std=gnu++20 option to enable C++11 features... none needed checking for gdal... yes checking for gdal... yes checking for gdal-config... /usr/bin/gdal-config configure: Using gdal-config at /usr/bin/gdal-config checking for gcc... gcc-16 checking whether the compiler supports GNU C... yes checking whether gcc-16 accepts -g... yes checking for gcc-16 option to enable C11 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 whether GDAL can be linked using only `gdal-config --libs`... yes checking for proj... yes checking proj datadir path... /usr/share/proj checking whether PROJ can be ran using the datadir... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc-16 (Debian 16.2.0-1) 16.2.0’ using C++ compiler: ‘g++-16 (Debian 16.2.0-1) 16.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpA7RBP1/R.INSTALL1b311641982f00/ICESat2VegR/src' if [ -n "/usr/share/proj" ]; then \ mkdir -p ../inst/proj;\ cp -R "/usr/share/proj" ../inst/;\ else \ echo "PROJ_DATADIR is empty. Skipping file copy.";\ fi; g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ANN.cpp -o ANN.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ANNIndex.cpp -o ANNIndex.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c IndexInterface.cpp -o IndexInterface.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bd_fix_rad_search.cpp -o bd_fix_rad_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bd_pr_search.cpp -o bd_pr_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bd_search.cpp -o bd_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bd_tree.cpp -o bd_tree.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c brute.cpp -o brute.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_dump.cpp -o kd_dump.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_fix_rad_search.cpp -o kd_fix_rad_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_pr_search.cpp -o kd_pr_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_search.cpp -o kd_search.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_split.cpp -o kd_split.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_tree.cpp -o kd_tree.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kd_util.cpp -o kd_util.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c perf.cpp -o perf.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c random_forest_to_strings.cpp -o random_forest_to_strings.o In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/RcppCommon.h:29, from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp.h:27, from random_forest_to_strings.cpp:2: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/r/check_r_headers.h:27:21: note: ‘#pragma message: R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410’ 27 | #pragma message "R.h has been included before any Rcpp headers. This can lead to hard-to-debug errors, and is not necessary. See https://github.com/RcppCore/Rcpp/issues/1410" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/include/R.h:73, from random_forest_to_strings.cpp:1: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/exceptions.h: In function ‘void Rcpp::Rf_warning(const char*, Args&& ...) [with Args = {char (&)[8192]}]’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/include/R_ext/Error.h:89:17: warning: infinite recursion detected [-Winfinite-recursion] 89 | #define warning Rf_warning | ^~~~~~~~~~ /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/exceptions.h:189:17: note: in expansion of macro ‘warning’ 189 | inline void warning(const char* fmt, Args&&... args ) { | ^~~~~~~ In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/RcppCommon.h:131: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/exceptions.h:200:19: note: recursive call 200 | Rf_warning("%s", buf); | ~~~~~~~~~~^~~~~~~~~~~ g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rasterizeHDF.cpp -o rasterizeHDF.o In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/Module.h:510, from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp.h:70, from rasterizeHDF.cpp:1: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/module/class.h: In instantiation of ‘void Rcpp::class_::SetFinalizer(finalizer_class*) [with Class = GDALDatasetR; finalizer_class = Rcpp::CppFinalizer]’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/module/class.h:497:13: required from ‘Rcpp::class_::self& Rcpp::class_::finalizer(void (*)(Class*)) [with Class = GDALDatasetR; self = Rcpp::class_]’ 497 | SetFinalizer( new FunctionFinalizer( f ) ) ; | ^~~~~~~~~~~~ gdal_bindings.h:349:17: required from here 344 | class_("CPP_GDALDataset") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 | .method("GetRasterBand", &GDALDatasetR::GetRasterBand) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 | .method("GetRasterXSize", &GDALDatasetR::GetRasterXSize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 | .method("GetRasterYSize", &GDALDatasetR::GetRasterYSize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 | .method("Close", &GDALDatasetR::Close) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 | .finalizer(&GDALDatasetFinalizer); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/module/class.h:507:42: warning: deleting object of polymorphic class type ‘Rcpp::CppFinalizer’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 507 | if( ptr->finalizer_pointer ) delete ptr->finalizer_pointer ; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc-16 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c registerDynamicSymbol.c -o registerDynamicSymbol.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sampling.cpp -o sampling.o g++-16 -std=gnu++20 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -I/usr/include/webp -isystem /usr/include/mit-krb5 -isystem /usr/include/mit-krb5 -I/usr/include/gdal -I/usr/local/include -I/usr/include/gdal -I. -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c seq_lens_simplify.cpp -o seq_lens_simplify.o g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o ICESat2VegR.so ANN.o ANNIndex.o IndexInterface.o RcppExports.o bd_fix_rad_search.o bd_pr_search.o bd_search.o bd_tree.o brute.o kd_dump.o kd_fix_rad_search.o kd_pr_search.o kd_search.o kd_split.o kd_tree.o kd_util.o perf.o random_forest_to_strings.o rasterizeHDF.o registerDynamicSymbol.o sampling.o seq_lens_simplify.o -L/usr/lib/x86_64-linux-gnu -lgdal -lproj -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpA7RBP1/R.INSTALL1b311641982f00/ICESat2VegR/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpA7RBP1/R.INSTALL1b311641982f00/ICESat2VegR/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpA7RBP1/R.INSTALL1b311641982f00/ICESat2VegR/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-ICESat2VegR/00new/ICESat2VegR/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘clip’ in package ‘ICESat2VegR’ ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location Installed 55 packages in 192ms ** 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 (ICESat2VegR)