* 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... /opt/R/arm64/bin/pkg-config checking pkg-config is at least version 0.15.0... yes checking the operating system name... Darwin 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 clang++ -arch arm64 -std=gnu++20 accepts -g... yes checking for clang++ -arch arm64 -std=gnu++20 option to enable C++11 features... none needed checking for gdal... yes checking for gdal... yes checking for gdal-config... /opt/R/arm64/bin/gdal-config configure: Using gdal-config at /opt/R/arm64/bin/gdal-config checking for gcc... clang -arch arm64 checking whether the compiler supports GNU C... yes checking whether clang -arch arm64 accepts -g... yes checking for clang -arch arm64 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... /opt/R/arm64/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: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’ using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’ using SDK: ‘MacOSX14.5.sdk’ if [ -n "/opt/R/arm64/share/proj" ]; then \ mkdir -p ../inst/proj;\ cp -R "/opt/R/arm64/share/proj" ../inst/;\ else \ echo "PROJ_DATADIR is empty. Skipping file copy.";\ fi; clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ANN.cpp -o ANN.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ANNIndex.cpp -o ANNIndex.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c IndexInterface.cpp -o IndexInterface.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bd_fix_rad_search.cpp -o bd_fix_rad_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bd_pr_search.cpp -o bd_pr_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bd_search.cpp -o bd_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bd_tree.cpp -o bd_tree.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c brute.cpp -o brute.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_dump.cpp -o kd_dump.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_fix_rad_search.cpp -o kd_fix_rad_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_pr_search.cpp -o kd_pr_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_search.cpp -o kd_search.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_split.cpp -o kd_split.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_tree.cpp -o kd_tree.o kd_dump.cpp:44:14: warning: unused variable 'EPSILON' [-Wunused-const-variable] 44 | const double EPSILON = 1E-5; // small number for float comparison | ^~~~~~~ 1 warning generated. clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c kd_util.cpp -o kd_util.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c perf.cpp -o perf.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c random_forest_to_strings.cpp -o random_forest_to_strings.o In file included from random_forest_to_strings.cpp:2: In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp.h:27: In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:29: /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:27:13: warning: 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 [-W#pragma-messages] 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" | ^ clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rasterizeHDF.cpp -o rasterizeHDF.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c registerDynamicSymbol.c -o registerDynamicSymbol.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c sampling.cpp -o sampling.o clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include -I/opt/R/arm64/include/webp -I/opt/R/arm64/include -I. -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c seq_lens_simplify.cpp -o seq_lens_simplify.o In file included from rasterizeHDF.cpp:1: In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp.h:70: In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/Module.h:510: /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/module/class.h:507:42: warning: delete called on non-final 'Rcpp::CppFinalizer' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor] 507 | if( ptr->finalizer_pointer ) delete ptr->finalizer_pointer ; | ^ /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/module/class.h:497:13: note: in instantiation of member function 'Rcpp::class_::SetFinalizer' requested here 497 | SetFinalizer( new FunctionFinalizer( f ) ) ; | ^ ./gdal_bindings.h:349:8: note: in instantiation of member function 'Rcpp::class_::finalizer' requested here 349 | .finalizer(&GDALDatasetFinalizer); | ^ 1 warning generated. 1 warning generated. clang++ -arch arm64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -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/opt/R/arm64/lib -lgdal -liconv -lodbcinst -lssl -lcrypto -llzma -ldeflate -llz4 -lgeotiff -lzstd -ljpeg -lpng -lnetcdf -lblosc -lwebp -ldf -lmfhdf -lz -lopenjp2 -lpcre2-8 -lpq -lodbc -lfreexl -lexpat -lxml2 -lgeos_c -lgeos -lproj -lm -ldl -lsqlite3 -ltiff -lcurl -lc++ -lpq -lpgcommon -lpgport -lm -ltiff -lwebp -lzstd -llzma -ljpeg -ldeflate -lz -lwebp -lm -D_THREAD_SAFE -pthread -lsharpyuv -lm -D_THREAD_SAFE -pthread -lzstd -pthread -llzma -pthread -lpthread -ljpeg -ldeflate -lz -lnetcdf -lhdf5_hl -lhdf5 -lm -lz -lbz2 -lzstd -lxml2 -lcurl -lsz -lhdf5_hl -lhdf5 -lm -lz -lbz2 -lzstd -lxml2 -lcurl -lsz -L/opt/R/arm64/lib -lproj -lc++ -lm -ldl -lsqlite3 -lz -ltiff -lwebp -lzstd -llzma -ljpeg -ldeflate -lz -lwebp -lm -D_THREAD_SAFE -pthread -lsharpyuv -lm -D_THREAD_SAFE -pthread -lzstd -pthread -llzma -pthread -lpthread -ljpeg -ldeflate -lz -lcurl -F/Library/Frameworks/R.framework/.. -framework R ld: warning: ignoring duplicate libraries: '-lbz2', '-lc++', '-lcurl', '-ldeflate', '-ldl', '-lhdf5', '-lhdf5_hl', '-ljpeg', '-llzma', '-lm', '-lnetcdf', '-lpq', '-lproj', '-lpthread', '-lsharpyuv', '-lsqlite3', '-lsz', '-ltiff', '-lwebp', '-lxml2', '-lz', '-lzstd' installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/ICESat2VegR.Rcheck/00LOCK-ICESat2VegR/00new/ICESat2VegR/libs ** generating debug symbols (dSYM) ** 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 Downloading google-api-python-client (15.3MiB) Downloading botocore (14.9MiB) Downloading cryptography (3.8MiB) Downloading h5py (2.9MiB) Downloaded h5py Downloaded cryptography Downloaded botocore Downloaded google-api-python-client Installed 55 packages in 107ms ** 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)