* installing *source* package ‘matrixCorr’ ...
** this is package ‘matrixCorr’ version ‘0.11.1’
** package ‘matrixCorr’ successfully unpacked and MD5 sums checked
** using staged installation
checking for required atomic ops support...
warning: could not compile atomic probe; falling back to default detection
not required
** libs
specified C++17
using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using C++17
using SDK: ‘MacOSX14.5.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -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 -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c biweight_mid_corr.cpp -o biweight_mid_corr.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c bland_altman.cpp -o bland_altman.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c bland_altman_repeated.cpp -o bland_altman_repeated.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c ccc_repeated.cpp -o ccc_repeated.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c ccc_repeated_helper.cpp -o ccc_repeated_helper.o
In file included from bland_altman_repeated.cpp:4:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
In file included from ccc_repeated_helper.cpp: 35 | In file included from In file included from 4bland_altman.cppRcppExports.cpp:
::2:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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 #p:
:35In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13::13: 4 warning: Rinternals.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]
warning: Rinternals.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]
35:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h | #pragm:29:
ra messaIn file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:ge "aRinternals.h has bg29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h35 | ma:e mesen included before any Rcpp heade35In file included from biweight_mid_corr.cpp:5:
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Rinternals.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]apsragma
In file included from In file included from sccc_repeated.cpp:2 . This can lead 35:
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In file included from :a/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h :26mtg:
esIn file included from s/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/RcppCommon.h:ie "Ra29:
/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include/Rcpp/r/check_r_headers.h:3526:
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| ^
In file included from biweight_mid_corr.cpp:13:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from bland_altman.cpp:10:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from bland_altman_repeated.cpp:13:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c ccc_repeated_mixed_model.cpp -o ccc_repeated_mixed_model.o
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c concordance_corr.cpp -o concordance_corr.o
In file included from ccc_repeated_mixed_model.cpp:3:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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 concordance_corr.cpp:2:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c distance_correlation.cpp -o distance_correlation.o
In file included from distance_correlation.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c icc.cpp -o icc.o
In file included from icc.cpp:4:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c kendall_corr.cpp -o kendall_corr.o
In file included from kendall_corr.cpp:3:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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 ccc_repeated_mixed_model.cpp:20:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from concordance_corr.cpp:4:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from kendall_corr.cpp:11:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c partial_correlation.cpp -o partial_correlation.o
In file included from partial_correlation.cpp:4:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c pearson.cpp -o pearson.o
In file included from pearson.cpp:3:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c rmcorr.cpp -o rmcorr.o
1 warning generated.
In file included from rmcorr.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c robust_correlations.cpp -o robust_correlations.o
In file included from robust_correlations.cpp:5:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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 partial_correlation.cpp:8:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from robust_correlations.cpp:13:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c schafer_strimmer_shrinkage_correlation.cpp -o schafer_strimmer_shrinkage_correlation.o
In file included from schafer_strimmer_shrinkage_correlation.cpp:4:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
robust_correlations.cpp:36:15: warning: unused function 'median_sorted_std' [-Wunused-function]
36 | inline double median_sorted_std(const std::vector<double>& xs) {
| ^~~~~~~~~~~~~~~~~
robust_correlations.cpp:75:15: warning: unused function 'idealf_iqr' [-Wunused-function]
75 | inline double idealf_iqr(const arma::vec& x) {
| ^~~~~~~~~~
robust_correlations.cpp:91:15: warning: unused function 'idealf_iqr_sorted_std' [-Wunused-function]
91 | inline double idealf_iqr_sorted_std(const std::vector<double>& y) {
| ^~~~~~~~~~~~~~~~~~~~~
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c spearman.cpp -o spearman.o
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c tetrachoric.cpp -o tetrachoric.o
In file included from spearman.cpp:2:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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 tetrachoric.cpp:4:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo.h:29:
In file included from /Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:26:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -include matrixCorr_r_api_compat.h -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_USE_CURRENT -fPIC -falign-functions=64 -Wall -g -O2 -c validate_corr_input.cpp -o validate_corr_input.o
In file included from validate_corr_input.cpp:4:
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:35:13: warning: Rinternals.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]
35 | #pragma message "Rinternals.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"
| ^
1 warning generated.
In file included from spearman.cpp:6:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
In file included from tetrachoric.cpp:12:
./matrixCorr_detail.h:917:17: warning: variable 'k' set but not used [-Wunused-but-set-variable]
917 | arma::uword k = 0;
| ^
1 warning generated.
2 warnings generated.
spearman.cpp:48:15: warning: unused function 'spearman_pair_core' [-Wunused-function]
48 | inline double spearman_pair_core(const arma::vec& x, const arma::vec& y) {
| ^~~~~~~~~~~~~~~~~~
5 warnings generated.
3 warnings generated.
2 warnings generated.
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 matrixCorr.so RcppExports.o biweight_mid_corr.o bland_altman.o bland_altman_repeated.o ccc_repeated.o ccc_repeated_helper.o ccc_repeated_mixed_model.o concordance_corr.o distance_correlation.o icc.o kendall_corr.o partial_correlation.o pearson.o rmcorr.o robust_correlations.o schafer_strimmer_shrinkage_correlation.o spearman.o tetrachoric.o validate_corr_input.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/matrixCorr.Rcheck/00LOCK-matrixCorr/00new/matrixCorr/libs
** generating debug symbols (dSYM)
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (matrixCorr)