* installing *source* package ‘divest’ ... ** package ‘divest’ successfully unpacked and MD5 sums checked ** using staged installation 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 x86_64 -std=gnu++17 accepts -g... yes checking for clang++ -arch x86_64 -std=gnu++17 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 fmemopen... yes checking for library containing opj_version... -lopenjp2 checking for openjpeg.h... no checking for library containing jas_getversion... no configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c main.cpp -o main.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dcm2niix/jpg_0XC3.cpp -o dcm2niix/jpg_0XC3.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dcm2niix/nifti1_io_core.cpp -o dcm2niix/nifti1_io_core.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dcm2niix/nii_dicom.cpp -o dcm2niix/nii_dicom.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dcm2niix/nii_dicom_batch.cpp -o dcm2niix/nii_dicom_batch.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dcm2niix/nii_ortho.cpp -o dcm2niix/nii_ortho.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -DmyDisableOpenJPEG -DHAVE_FMEMOPEN -I. -Idcm2niix -Iujpeg -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c ujpeg/ujpeg.cpp -o ujpeg/ujpeg.o In file included from dcm2niix/nifti1_io_core.cpp:19: In file included from dcm2niix/nifti1_io_core.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti.h:50: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti/NiftiImage.h:333:33: warning: suggest braces around initialization of subobject [-Wmissing-braces] Rcomplex rValue = { value.real(), value.imag() }; ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } In file included from dcm2niix/nii_ortho.cpp:4: In file included from dcm2niix/nifti1_io_core.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti.h:50: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti/NiftiImage.h:333:33: warning: suggest braces around initialization of subobject [-Wmissing-braces] Rcomplex rValue = { value.real(), value.imag() }; ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } In file included from main.cpp:3: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti.h:50: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti/NiftiImage.h:333:33: warning: suggest braces around initialization of subobject [-Wmissing-braces] Rcomplex rValue = { value.real(), value.imag() }; ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } In file included from dcm2niix/nii_dicom.cpp:27: In file included from dcm2niix/nifti1_io_core.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti.h:50: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti/NiftiImage.h:333:33: warning: suggest braces around initialization of subobject [-Wmissing-braces] Rcomplex rValue = { value.real(), value.imag() }; ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } dcm2niix/nii_dicom.cpp:1912:6: warning: variable 'patientPositionNumPhilips' set but not used [-Wunused-but-set-variable] int patientPositionNumPhilips = 0; ^ In file included from dcm2niix/nii_dicom_batch.cpp:31: In file included from dcm2niix/nifti1_io_core.h:10: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti.h:50: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RNifti/include/RNifti/NiftiImage.h:333:33: warning: suggest braces around initialization of subobject [-Wmissing-braces] Rcomplex rValue = { value.real(), value.imag() }; ^~~~~~~~~~~~~~~~~~~~~~~~~~ { } dcm2niix/nii_dicom_batch.cpp:2505:7: warning: variable 'isIsotropic' set but not used [-Wunused-but-set-variable] bool isIsotropic = false; ^ dcm2niix/nii_dicom_batch.cpp:6334:9: warning: unused variable 'pf' [-Wunused-variable] float pf = 1.0f; //partial fourier ^ dcm2niix/nii_dicom_batch.cpp:6597:7: warning: variable 'isDirLabel' set but not used [-Wunused-but-set-variable] bool isDirLabel = false; //report phase encoding direction ^ dcm2niix/nii_dicom_batch.cpp:6768:6: warning: variable 'nVol' set but not used [-Wunused-but-set-variable] int nVol = 1; ^ dcm2niix/nii_dicom_batch.cpp:7728:11: warning: variable 'slicePositionRepeats' set but not used [-Wunused-but-set-variable] int slicePositionRepeats = 1; //how many times is first position repeated ^ dcm2niix/nii_dicom_batch.cpp:8022:10: warning: unused variable 'shearMat' [-Wunused-variable] mat33 shearMat; ^ 1 warning generated. 1 warning generated. 1 warning generated. 2 warnings generated. 7 warnings generated. clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o divest.so main.o dcm2niix/jpg_0XC3.o dcm2niix/nifti1_io_core.o dcm2niix/nii_dicom.o dcm2niix/nii_dicom_batch.o dcm2niix/nii_ortho.o ujpeg/ujpeg.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/divest.Rcheck/00LOCK-divest/00new/divest/libs ** generating debug symbols (dSYM) ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 (divest)