* installing *source* package ‘FastJM’ ... ** this is package ‘FastJM’ version ‘1.5.0’ ** package ‘FastJM’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GetrisksetC.cpp -o GetrisksetC.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c GetrisksetCSF.cpp -o GetrisksetCSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/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'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c basics.cpp -o basics.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getBayes.cpp -o getBayes.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getCov.cpp -o getCov.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getCovSF.cpp -o getCovSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECIF.cpp -o getECIF.o getECIF.cpp:24:9: warning: unused variable 'j' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIF.cpp:24:18: warning: unused variable 'uu' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIF.cpp:24:11: warning: unused variable 'q' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIF.cpp:24:13: warning: unused variable 't' [-Wunused-variable] int i,j,q,t,db,uu; ^ 4 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECIFall.cpp -o getECIFall.o getECIFall.cpp:28:18: warning: unused variable 'uu' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIFall.cpp:28:13: warning: unused variable 't' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIFall.cpp:28:9: warning: unused variable 'j' [-Wunused-variable] int i,j,q,t,db,uu; ^ getECIFall.cpp:28:11: warning: unused variable 'q' [-Wunused-variable] int i,j,q,t,db,uu; ^ 4 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECpseudo.cpp -o getECpseudo.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECpseudoSF.cpp -o getECpseudoSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECstandard.cpp -o getECstandard.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getECstandardSF.cpp -o getECstandardSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getES.cpp -o getES.o getES.cpp:21:18: warning: unused variable 'uu' [-Wunused-variable] int i,j,q,t,db,uu; ^ getES.cpp:21:11: warning: unused variable 'q' [-Wunused-variable] int i,j,q,t,db,uu; ^ getES.cpp:21:9: warning: unused variable 'j' [-Wunused-variable] int i,j,q,t,db,uu; ^ getES.cpp:21:13: warning: unused variable 't' [-Wunused-variable] int i,j,q,t,db,uu; ^ 4 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getHazard.cpp -o getHazard.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getHazardSF.cpp -o getHazardSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getMC.cpp -o getMC.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getMCSF.cpp -o getMCSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getMNA.cpp -o getMNA.o getMNA.cpp:26:6: warning: unused variable 'numWeight' [-Wunused-variable] int numWeight = weight.size(); ^ getMNA.cpp:31:6: warning: unused variable 'numBio' [-Wunused-variable] int numBio = Rcpp::as<Rcpp::List>(XList[0]).size(); ^ 2 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getMaGH.cpp -o getMaGH.o getMaGH.cpp:26:6: warning: unused variable 'numWeight' [-Wunused-variable] int numWeight = weight.size(); ^ getMaGH.cpp:70:6: warning: variable 'numRep' set but not used [-Wunused-but-set-variable] int numRep; ^ 2 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getPus.cpp -o getPus.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getPusCR.cpp -o getPusCR.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getfitted.cpp -o getfitted.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getfittedSurv.cpp -o getfittedSurv.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getfittedSurvSF.cpp -o getfittedSurvSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getloglikeCpseudo.cpp -o getloglikeCpseudo.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getloglikeCpseudoSF.cpp -o getloglikeCpseudoSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getloglikeCstandard.cpp -o getloglikeCstandard.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getloglikeCstandardSF.cpp -o getloglikeCstandardSF.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getmvCov.cpp -o getmvCov.o getmvCov.cpp:158:7: warning: variable 'pREindex' set but not used [-Wunused-but-set-variable] int pREindex = 0; ^ getmvCov.cpp:147:10: warning: unused variable 'r' [-Wunused-variable] double r;//, epsilon; ^ getmvCov.cpp:161:7: warning: unused variable 'SEindex' [-Wunused-variable] int SEindex = 0; ^ getmvCov.cpp:53:11: warning: unused variable 'j' [-Wunused-variable] int i,q,j,t,u; ^ 4 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c getmvCovSF.cpp -o getmvCovSF.o getmvCovSF.cpp:123:10: warning: unused variable 'r' [-Wunused-variable] double r;//, epsilon; ^ getmvCovSF.cpp:134:7: warning: variable 'pREindex' set but not used [-Wunused-but-set-variable] int pREindex = 0; ^ getmvCovSF.cpp:137:7: warning: unused variable 'SEindex' [-Wunused-variable] int SEindex = 0; ^ getmvCovSF.cpp:48:11: warning: unused variable 'j' [-Wunused-variable] int i,q,j,t,u; ^ 4 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c mixedmethod.cpp -o mixedmethod.o mixedmethod.cpp:30:7: warning: unused variable 'numBio' [-Wunused-variable] int numBio = Rcpp::as<Rcpp::List>(XList[0]).size(); ^ mixedmethod.cpp:347:7: warning: unused variable 'count' [-Wunused-variable] int count = 0; ^ mixedmethod.cpp:462:10: warning: unused variable 'denomH' [-Wunused-variable] double denomH = 0; ^ 3 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c nonmix.cpp -o nonmix.o nonmix.cpp:206:10: warning: unused variable 'denomH' [-Wunused-variable] double denomH = 0; ^ 1 warning generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c normalApproxSF.cpp -o normalApproxSF.o normalApproxSF.cpp:216:10: warning: unused variable 'denomH' [-Wunused-variable] double denomH = 0; ^ normalApproxSF.cpp:219:10: warning: unused variable 'dem2' [-Wunused-variable] double dem2 = 0; ^ 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 FastJM.so GetrisksetC.o GetrisksetCSF.o RcppExports.o basics.o getBayes.o getCov.o getCovSF.o getECIF.o getECIFall.o getECpseudo.o getECpseudoSF.o getECstandard.o getECstandardSF.o getES.o getHazard.o getHazardSF.o getMC.o getMCSF.o getMNA.o getMaGH.o getPus.o getPusCR.o getfitted.o getfittedSurv.o getfittedSurvSF.o getloglikeCpseudo.o getloglikeCpseudoSF.o getloglikeCstandard.o getloglikeCstandardSF.o getmvCov.o getmvCovSF.o mixedmethod.o nonmix.o normalApproxSF.o -F/Library/Frameworks/R.framework/.. -framework R installing to /Volumes/Builds/packages/big-sur-arm64/results/4.5/FastJM.Rcheck/00LOCK-FastJM/00new/FastJM/libs ** generating debug symbols (dSYM) ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (FastJM)