* installing *source* package ‘cmtkr’ ... ** this is package ‘cmtkr’ version ‘0.2.2’ ** package ‘cmtkr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ using SDK: ‘MacOSX11.3.1.sdk’ clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/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++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c streamxform.cpp -o streamxform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk_stubs.cpp -o cmtk_stubs.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkXform.cxx -o cmtk/Base/cmtkXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkXform_Inverse.cxx -o cmtk/Base/cmtkXform_Inverse.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkXformList.cxx -o cmtk/Base/cmtkXformList.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkXformListEntry.cxx -o cmtk/Base/cmtkXformListEntry.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkAffineXform.cxx -o cmtk/Base/cmtkAffineXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkWarpXform.cxx -o cmtk/Base/cmtkWarpXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkSplineWarpXform.cxx -o cmtk/Base/cmtkSplineWarpXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkSplineWarpXform_Inverse.cxx -o cmtk/Base/cmtkSplineWarpXform_Inverse.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkSplineWarpXform_Jacobian.cxx -o cmtk/Base/cmtkSplineWarpXform_Jacobian.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkSplineWarpXform_Rigidity.cxx -o cmtk/Base/cmtkSplineWarpXform_Rigidity.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkPolynomialXform.cxx -o cmtk/Base/cmtkPolynomialXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkTypes.cxx -o cmtk/Base/cmtkTypes.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkMatrix3x3.cxx -o cmtk/Base/cmtkMatrix3x3.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkMatrix4x4.cxx -o cmtk/Base/cmtkMatrix4x4.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkCompatibilityMatrix4x4.cxx -o cmtk/Base/cmtkCompatibilityMatrix4x4.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkVector.cxx -o cmtk/Base/cmtkVector.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkBitVector.cxx -o cmtk/Base/cmtkBitVector.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkMetaInformationObject.cxx -o cmtk/Base/cmtkMetaInformationObject.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkAnatomicalOrientation.cxx -o cmtk/Base/cmtkAnatomicalOrientation.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkAnatomicalOrientationBase.cxx -o cmtk/Base/cmtkAnatomicalOrientationBase.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkAnatomicalOrientationPermutationMatrix.cxx -o cmtk/Base/cmtkAnatomicalOrientationPermutationMatrix.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkDataGrid.cxx -o cmtk/Base/cmtkDataGrid.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkDataGrid_Crop.cxx -o cmtk/Base/cmtkDataGrid_Crop.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkUniformVolume.cxx -o cmtk/Base/cmtkUniformVolume.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkUniformVolume_Crop.cxx -o cmtk/Base/cmtkUniformVolume_Crop.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkUniformVolume_Differential.cxx -o cmtk/Base/cmtkUniformVolume_Differential.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkUniformVolume_Resample.cxx -o cmtk/Base/cmtkUniformVolume_Resample.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkUniformVolume_Space.cxx -o cmtk/Base/cmtkUniformVolume_Space.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkVolume.cxx -o cmtk/Base/cmtkVolume.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkTypedArray.cxx -o cmtk/Base/cmtkTypedArray.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkTypedArray_Statistics.cxx -o cmtk/Base/cmtkTypedArray_Statistics.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkScalarImage.cxx -o cmtk/Base/cmtkScalarImage.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkHistogram.cxx -o cmtk/Base/cmtkHistogram.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkLandmark.cxx -o cmtk/Base/cmtkLandmark.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkLandmarkList.cxx -o cmtk/Base/cmtkLandmarkList.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkLandmarkPair.cxx -o cmtk/Base/cmtkLandmarkPair.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkMathUtil_LinAlg.cxx -o cmtk/Base/cmtkMathUtil_LinAlg.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Base/cmtkVolumeGridToGridLookup.cxx -o cmtk/Base/cmtkVolumeGridToGridLookup.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkXformIO.cxx -o cmtk/IO/cmtkXformIO.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkXformListIO.cxx -o cmtk/IO/cmtkXformListIO.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkClassStreamAffineXform.cxx -o cmtk/IO/cmtkClassStreamAffineXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkClassStreamWarpXform.cxx -o cmtk/IO/cmtkClassStreamWarpXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkClassStreamPolynomialXform.cxx -o cmtk/IO/cmtkClassStreamPolynomialXform.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkTypedStream.cxx -o cmtk/IO/cmtkTypedStream.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkTypedStreamInput.cxx -o cmtk/IO/cmtkTypedStreamInput.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkTypedStreamOutput.cxx -o cmtk/IO/cmtkTypedStreamOutput.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkTypedStreamStudylist.cxx -o cmtk/IO/cmtkTypedStreamStudylist.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkFileFormat.cxx -o cmtk/IO/cmtkFileFormat.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/IO/cmtkAffineXformITKIO.cxx -o cmtk/IO/cmtkAffineXformITKIO.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkConsole.cxx -o cmtk/System/cmtkConsole.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkFileUtils.cxx -o cmtk/System/cmtkFileUtils.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkMountPoints.cxx -o cmtk/System/cmtkMountPoints.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkStrUtility.cxx -o cmtk/System/cmtkStrUtility.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkMemory.cxx -o cmtk/System/cmtkMemory.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkCompressedStream.cxx -o cmtk/System/cmtkCompressedStream.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkCompressedStreamFile.cxx -o cmtk/System/cmtkCompressedStreamFile.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkCompressedStreamZlib.cxx -o cmtk/System/cmtkCompressedStreamZlib.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkCompressedStreamPipe.cxx -o cmtk/System/cmtkCompressedStreamPipe.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkCompressedStreamReaderBase.cxx -o cmtk/System/cmtkCompressedStreamReaderBase.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkThreads.cxx -o cmtk/System/cmtkThreads.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkThreadPoolGCD.cxx -o cmtk/System/cmtkThreadPoolGCD.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkSafeCounterGCD.cxx -o cmtk/System/cmtkSafeCounterGCD.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkThreadPoolThreads.cxx -o cmtk/System/cmtkThreadPoolThreads.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkThreadSemaphore.cxx -o cmtk/System/cmtkThreadSemaphore.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/System/cmtkProgress.cxx -o cmtk/System/cmtkProgress.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/ap.cxx -o cmtk/Numerics/ap.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/blas.cxx -o cmtk/Numerics/blas.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/rotations.cxx -o cmtk/Numerics/rotations.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/tdevd.cxx -o cmtk/Numerics/tdevd.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/sblas.cxx -o cmtk/Numerics/sblas.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/reflections.cxx -o cmtk/Numerics/reflections.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/tridiagonal.cxx -o cmtk/Numerics/tridiagonal.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/cholesky.cxx -o cmtk/Numerics/cholesky.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/bidiagonal.cxx -o cmtk/Numerics/bidiagonal.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/qr.cxx -o cmtk/Numerics/qr.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/lq.cxx -o cmtk/Numerics/lq.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/bdsvd.cxx -o cmtk/Numerics/bdsvd.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/sevd.cxx -o cmtk/Numerics/sevd.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/spddet.cxx -o cmtk/Numerics/spddet.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -Icmtk -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c cmtk/Numerics/svd.cxx -o cmtk/Numerics/svd.o clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o cmtkr.so RcppExports.o streamxform.o cmtk_stubs.o cmtk/Base/cmtkXform.o cmtk/Base/cmtkXform_Inverse.o cmtk/Base/cmtkXformList.o cmtk/Base/cmtkXformListEntry.o cmtk/Base/cmtkAffineXform.o cmtk/Base/cmtkWarpXform.o cmtk/Base/cmtkSplineWarpXform.o cmtk/Base/cmtkSplineWarpXform_Inverse.o cmtk/Base/cmtkSplineWarpXform_Jacobian.o cmtk/Base/cmtkSplineWarpXform_Rigidity.o cmtk/Base/cmtkPolynomialXform.o cmtk/Base/cmtkTypes.o cmtk/Base/cmtkMatrix3x3.o cmtk/Base/cmtkMatrix4x4.o cmtk/Base/cmtkCompatibilityMatrix4x4.o cmtk/Base/cmtkVector.o cmtk/Base/cmtkBitVector.o cmtk/Base/cmtkMetaInformationObject.o cmtk/Base/cmtkAnatomicalOrientation.o cmtk/Base/cmtkAnatomicalOrientationBase.o cmtk/Base/cmtkAnatomicalOrientationPermutationMatrix.o cmtk/Base/cmtkDataGrid.o cmtk/Base/cmtkDataGrid_Crop.o cmtk/Base/cmtkUniformVolume.o cmtk/Base/cmtkUniformVolume_Crop.o cmtk/Base/cmtkUniformVolume_Differential.o cmtk/Base/cmtkUniformVolume_Resample.o cmtk/Base/cmtkUniformVolume_Space.o cmtk/Base/cmtkVolume.o cmtk/Base/cmtkTypedArray.o cmtk/Base/cmtkTypedArray_Statistics.o cmtk/Base/cmtkScalarImage.o cmtk/Base/cmtkHistogram.o cmtk/Base/cmtkLandmark.o cmtk/Base/cmtkLandmarkList.o cmtk/Base/cmtkLandmarkPair.o cmtk/Base/cmtkMathUtil_LinAlg.o cmtk/Base/cmtkVolumeGridToGridLookup.o cmtk/IO/cmtkXformIO.o cmtk/IO/cmtkXformListIO.o cmtk/IO/cmtkClassStreamAffineXform.o cmtk/IO/cmtkClassStreamWarpXform.o cmtk/IO/cmtkClassStreamPolynomialXform.o cmtk/IO/cmtkTypedStream.o cmtk/IO/cmtkTypedStreamInput.o cmtk/IO/cmtkTypedStreamOutput.o cmtk/IO/cmtkTypedStreamStudylist.o cmtk/IO/cmtkFileFormat.o cmtk/IO/cmtkAffineXformITKIO.o cmtk/System/cmtkConsole.o cmtk/System/cmtkFileUtils.o cmtk/System/cmtkMountPoints.o cmtk/System/cmtkStrUtility.o cmtk/System/cmtkMemory.o cmtk/System/cmtkCompressedStream.o cmtk/System/cmtkCompressedStreamFile.o cmtk/System/cmtkCompressedStreamZlib.o cmtk/System/cmtkCompressedStreamPipe.o cmtk/System/cmtkCompressedStreamReaderBase.o cmtk/System/cmtkThreads.o cmtk/System/cmtkThreadPoolGCD.o cmtk/System/cmtkSafeCounterGCD.o cmtk/System/cmtkThreadPoolThreads.o cmtk/System/cmtkThreadSemaphore.o cmtk/System/cmtkProgress.o cmtk/Numerics/ap.o cmtk/Numerics/blas.o cmtk/Numerics/rotations.o cmtk/Numerics/tdevd.o cmtk/Numerics/sblas.o cmtk/Numerics/reflections.o cmtk/Numerics/tridiagonal.o cmtk/Numerics/cholesky.o cmtk/Numerics/bidiagonal.o cmtk/Numerics/qr.o cmtk/Numerics/lq.o cmtk/Numerics/bdsvd.o cmtk/Numerics/sevd.o cmtk/Numerics/spddet.o cmtk/Numerics/svd.o -lz -lpthread -F/Library/Frameworks/R.framework/.. -framework R installing to /Volumes/Builds/packages/big-sur-arm64/results/4.5/cmtkr.Rcheck/00LOCK-cmtkr/00new/cmtkr/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 (cmtkr)