* installing *source* package ‘DEploid’ ... ** using staged installation ** libs using C compiler: ‘Debian clang version 18.1.8 (12)’ using C++ compiler: ‘Debian clang version 18.1.8 (12)’ using C++11 clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c rvcf.cpp -o rvcf.o In file included from rvcf.cpp:2: In file included from DEploid/vcfReader.hpp:30: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c dEploidr.cpp -o dEploidr.o In file included from dEploidr.cpp:28: In file included from DEploid/mcmc.hpp:31: In file included from DEploid/dEploidIO.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c test_exports.cpp -o test_exports.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o clang-18 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -fpic -g -O3 -Wall -pedantic -c init.c -o init.o init.c:13:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 13 | extern SEXP _DEploid_test_RRG_sample(); | ^ | void init.c:15:45: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes] 15 | extern SEXP _DEploid_test_RRG_sampleUnitExpo(); | ^ | void 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/dEploidIO.cpp -o DEploid/dEploidIO.o In file included from DEploid/dEploidIO.cpp:30: In file included from DEploid/updateHap.hpp:29: In file included from DEploid/panel.hpp:29: In file included from DEploid/txtReader.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/dEploidIO.cpp:193:10: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 193 | if ( this->doIbdPainting() | this->doComputeLLK() | this->doIbdViterbiPainting() ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || DEploid/dEploidIO.cpp:193:10: note: cast one or both operands to int to silence this warning DEploid/dEploidIO.cpp:193:10: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 193 | if ( this->doIbdPainting() | this->doComputeLLK() | this->doIbdViterbiPainting() ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || DEploid/dEploidIO.cpp:193:10: note: cast one or both operands to int to silence this warning DEploid/dEploidIO.cpp:544:9: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical] 544 | if (this->useBestPractice() & (!this->usePanel())){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | && DEploid/dEploidIO.cpp:544:9: note: cast one or both operands to int to silence this warning DEploid/dEploidIO.cpp:767:10: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 767 | if ( this->doIbdPainting() | this->doComputeLLK() ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || DEploid/dEploidIO.cpp:767:10: note: cast one or both operands to int to silence this warning 6 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/ibd.cpp -o DEploid/ibd.o In file included from DEploid/ibd.cpp:32: In file included from DEploid/ibd.hpp:30: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/mcmc.cpp -o DEploid/mcmc.o In file included from DEploid/mcmc.cpp:32: In file included from DEploid/updateHap.hpp:29: In file included from DEploid/panel.hpp:29: In file included from DEploid/txtReader.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/mcmc.cpp:317:20: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 317 | if ( notInR & ((jobbrief == "lassoK") | (jobbrief == "ibd") | (jobbrief == "classic")) ) { // notInPython | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || DEploid/mcmc.cpp:317:20: note: cast one or both operands to int to silence this warning DEploid/mcmc.cpp:317:20: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] 317 | if ( notInR & ((jobbrief == "lassoK") | (jobbrief == "ibd") | (jobbrief == "classic")) ) { // notInPython | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | || DEploid/mcmc.cpp:317:20: note: cast one or both operands to int to silence this warning 4 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/panel.cpp -o DEploid/panel.o In file included from DEploid/panel.cpp:26: In file included from DEploid/panel.hpp:29: In file included from DEploid/txtReader.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/txtReader.cpp -o DEploid/txtReader.o In file included from DEploid/txtReader.cpp:30: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/updateHap.cpp -o DEploid/updateHap.o In file included from DEploid/updateHap.cpp:26: In file included from DEploid/updateHap.hpp:29: In file included from DEploid/panel.hpp:29: In file included from DEploid/txtReader.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/utility.cpp -o DEploid/utility.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/variantIndex.cpp -o DEploid/variantIndex.o In file included from DEploid/variantIndex.cpp:28: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/vcfReader.cpp -o DEploid/vcfReader.o In file included from DEploid/vcfReader.cpp:29: In file included from DEploid/vcfReader.hpp:30: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/vcfReader.cpp:344:9: warning: variable 'field_index' set but not used [-Wunused-but-set-variable] 344 | int field_index = 0; | ^ 3 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/gzstream/gzstream.cpp -o DEploid/gzstream/gzstream.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/random/fastfunc.cpp -o DEploid/random/fastfunc.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/random/random_generator.cpp -o DEploid/random/random_generator.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/random/mersenne_twister.cpp -o DEploid/random/mersenne_twister.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/export/dEploidIOExportPosteriorProb.cpp -o DEploid/export/dEploidIOExportPosteriorProb.o In file included from DEploid/export/dEploidIOExportPosteriorProb.cpp:26: In file included from DEploid/dEploidIO.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/export/writeMcmcRelated.cpp -o DEploid/export/writeMcmcRelated.o In file included from DEploid/export/writeMcmcRelated.cpp:26: In file included from DEploid/dEploidIO.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/lasso/dEploidLasso.cpp -o DEploid/lasso/dEploidLasso.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/lasso/lasso.cpp -o DEploid/lasso/lasso.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/lasso/lassoDBG.cpp -o DEploid/lasso/lassoDBG.o clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/debug/vcfReaderDebug.cpp -o DEploid/debug/vcfReaderDebug.o In file included from DEploid/debug/vcfReaderDebug.cpp:28: In file included from DEploid/vcfReader.hpp:30: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -I"/home/hornik/tmp/R-d-clang-18/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DSTRICT_R_HEADERS=1 -I/usr/share/R/include/ -IDEploid/ -IDEploid/codeCogs/ -IDEploid/random/ -IDEploid/gzstream/ -IDEploid/lasso/ -DVERSION="\"R\"" -DRBUILD -DSTRICT_R_HEADERS -fpic -g -O3 -Wall -pedantic -Wno-error=enum-constexpr-conversion -DR_NO_REMAP -c DEploid/debug/mcmcDebug.cpp -o DEploid/debug/mcmcDebug.o In file included from DEploid/debug/mcmcDebug.cpp:26: In file included from DEploid/mcmc.hpp:31: In file included from DEploid/dEploidIO.hpp:33: DEploid/exceptions.hpp:42:14: warning: returning address of local temporary object [-Wreturn-stack-address] 42 | return string("Should not reach here").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ DEploid/exceptions.hpp:78:14: warning: returning address of local temporary object [-Wreturn-stack-address] 78 | return string("Out of vector size!").c_str(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2 warnings generated. clang++-18 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-clang-18/lib -Wl,-O1 -o DEploid.so rvcf.o dEploidr.o test_exports.o RcppExports.o init.o DEploid/dEploidIO.o DEploid/ibd.o DEploid/mcmc.o DEploid/panel.o DEploid/txtReader.o DEploid/updateHap.o DEploid/utility.o DEploid/variantIndex.o DEploid/vcfReader.o DEploid/gzstream/gzstream.o DEploid/random/fastfunc.o DEploid/random/random_generator.o DEploid/random/mersenne_twister.o DEploid/export/dEploidIOExportPosteriorProb.o DEploid/export/writeMcmcRelated.o DEploid/lasso/dEploidLasso.o DEploid/lasso/lasso.o DEploid/lasso/lassoDBG.o DEploid/debug/vcfReaderDebug.o DEploid/debug/mcmcDebug.o -lz -L/home/hornik/tmp/R-d-clang-18/lib -lR installing to /srv/hornik/tmp/CRAN_pretest/DEploid.Rcheck/00LOCK-DEploid/00new/DEploid/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 (DEploid)