8000 Build failure: `io_snp_unphased.hpp: error: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand` · Issue #16 · JamesYang007/adelie-r · GitHub
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Build failure: io_snp_unphased.hpp: error: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand #16

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barracuda156 opened this issue Feb 15, 2025 · 0 comments
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Build failure: io_snp_unphased.hpp: error: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand #16

barracuda156 opened this issue Feb 15, 2025 · 0 comments

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@barracuda156
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The build currently fails on 32-bit:

:notice:build --->  Building R-adelie
:debug:build Executing proc-pre-org.macports.build-build-0
:info:build xinstall: mkdir /opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build
:debug:build Executing org.macports.build (R-adelie)
:debug:build Environment: 
:debug:build CC_PRINT_OPTIONS='YES'
:debug:build CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/.CC_PRINT_OPTIONS'
:debug:build CPATH='/opt/local/include'
:debug:build DEVELOPER_DIR='/Developer'
:debug:build DYLD_LIBRARY_PATH='/opt/local/lib/libgcc'
:debug:build LIBRARY_PATH='/opt/local/lib'
:debug:build MACOSX_DEPLOYMENT_TARGET='10.6'
:debug:build SOURCE_DATE_EPOCH='1739625098'
:info:build Executing:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:debug:build system:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:info:build * installing *source* package ‘adelie’ ...
:info:build file ‘src/Makevars’ has the wrong MD5 checksum
:info:build ** using staged installation
:info:build ** libs
:info:build using C++ compiler: ‘g++-mp-14 (MacPorts gcc14 14.2.0_1+G5+stdlib_flag) 14.2.0’
:info:build using C++17
:info:build Warning in system2("xcrun", "--show-sdk-path", TRUE, TRUE) :
:info:build   running command ''xcrun' --show-sdk-path 2>&1' had status 64
:info:build using SDK: ‘NA’‘NA’‘NA’‘NA’‘NA’‘NA’
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fPIC  -pipe -Os -arch ppc   -c RcppExports.cpp -o RcppExports.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fPIC  -pipe -Os -arch ppc   -c rcpp_configs.cpp -o rcpp_configs.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fPIC  -pipe -Os -arch ppc   -c rcpp_constraint.cpp -o rcpp_constraint.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_matrix.h:4,
:info:build                  from rcpp_constraint.h:4,
:info:build                  from rcpp_constraint.cpp:1:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1> >, size_t) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: error: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: error: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build make: *** [rcpp_constraint.o] Error 1
:info:build ERROR: compilation failed for package ‘adelie’
:info:build * removing ‘/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build/adelie’
:info:build Command failed:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:info:build Exit code: 1
:error:build Failed to build R-adelie: command execution failed
:debug:build Error code: CHILDSTATUS 37548 1

(It is not 8000 conditional on -D_GLIBCXX_USE_CXX11_ABI=0 being passed or not, this error is the same.)

If I pass -fpermissive, as gcc suggests, it still fails, but at loading:

:notice:build --->  Building R-adelie
:debug:build Executing proc-pre-org.macports.build-build-0
:info:build xinstall: mkdir /opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build
:debug:build Executing org.macports.build (R-adelie)
:debug:build Environment: 
:debug:build CC_PRINT_OPTIONS='YES'
:debug:build CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/.CC_PRINT_OPTIONS'
:debug:build CPATH='/opt/local/include'
:debug:build DEVELOPER_DIR='/Developer'
:debug:build DYLD_LIBRARY_PATH='/opt/local/lib/libgcc'
:debug:build LIBRARY_PATH='/opt/local/lib'
:debug:build MACOSX_DEPLOYMENT_TARGET='10.6'
:debug:build SOURCE_DATE_EPOCH='1739625468'
:info:build Executing:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:debug:build system:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:info:build * installing *source* package ‘adelie’ ...
:info:build file ‘src/Makevars’ has the wrong MD5 checksum
:info:build ** using staged installation
:info:build ** libs
:info:build using C++ compiler: ‘g++-mp-14 (MacPorts gcc14 14.2.0_1+G5+stdlib_flag) 14.2.0’
:info:build using C++17
:info:build Warning in system2("xcrun", "--show-sdk-path", TRUE, TRUE) :
:info:build   running command ''xcrun' --show-sdk-path 2>&1' had status 64
:info:build using SDK: ‘NA’‘NA’‘NA’‘NA’‘NA’‘NA’
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c RcppExports.cpp -o RcppExports.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_configs.cpp -o rcpp_configs.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_constraint.cpp -o rcpp_constraint.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_matrix.h:4,
:info:build                  from rcpp_constraint.h:4,
:info:build                  from rcpp_constraint.cpp:1:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1> >, size_t) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_glm.cpp -o rcpp_glm.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_io.cpp -o rcpp_io.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_io.cpp:1:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1> >, size_t
8000
) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_matrix.cpp -o rcpp_matrix.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_matrix.h:4,
:info:build                  from rcpp_matrix.cpp:1:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1> >, size_t) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_matrix_utils_blas.cpp -o rcpp_matrix_utils_blas.o
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_solver.cpp -o rcpp_solver.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_matrix.h:4,
:info:build                  from rcpp_solver.cpp:3:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1>, 0, Eigen::InnerStride<1> >, size_t) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/adelie/adelie/src/include -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/Rcpp/include' -I'/opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/library/RcppEigen/include' -isystem/opt/local/include/LegacySupport -I/opt/local/include   -fopenmp -D_GLIBCXX_USE_CXX11_ABI=0 -fpermissive -fPIC  -pipe -Os -arch ppc   -c rcpp_state.cpp -o rcpp_state.o
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:2,
:info:build                  from rcpp_io.h:4,
:info:build                  from rcpp_matrix.h:4,
:info:build                  from rcpp_state.h:3,
:info:build                  from rcpp_state.cpp:1:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build In file included from ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:2,
:info:build                  from rcpp_io.h:5:
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: left shift count >= width of type [-Wshift-count-overflow]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPUnphased<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.ipp:93:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPUnphased<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const std::string&, Eigen::Ref<Eigen::Array<double, 1, -1, 1, 1, -1> >, size_t) const [with MmapPtrType = std::shared_ptr<char>; std::string = std::basic_string<char>; size_t = long unsigned int]'
:info:build    93 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:33:41:   required from here
:info:build    33 |         return std::get<0>(base_t::write(calldata8, impute_method, impute, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_unphased.hpp:165:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build   163 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build   164 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   165 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build   166 |     );
:info:build       |     ~                             
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp: In instantiation of 'constexpr const size_t adelie_core::io::IOSNPPhasedAncestry<std::shared_ptr<char> >::_max_inner':
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.ipp:114:23:   required from 'std::tuple<long unsigned int, std::unordered_map<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double, std::hash<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::equal_to<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::pair<const std::basic_string<char, std::char_traits<char>, std::allocator<char> >, double> > > > adelie_core::io::IOSNPPhasedAncestry<MmapPtrType>::write(const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, const Eigen::Ref<const Eigen::Array<signed char, -1, -1, 0, -1, -1> >&, size_t, size_t) const [with MmapPtrType = std::shared_ptr<char>; size_t = long unsigned int]'
:info:build   114 |     if (max_chunks >= _max_inner) {
:info:build       |                       ^~~~~~~~~~
:info:build rcpp_io.h:60:41:   required from here
:info:build    60 |         return std::get<0>(base_t::write(calldata8, ancestries8, A, n_threads));
:info:build       |                            ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build ../inst/adelie/adelie/src/include/adelie_core/io/io_snp_phased_ancestry.hpp:43:34: warning: right operand of shift expression '(1 << 32)' is greater than or equal to the precision 32 of the left operand [-fpermissive]
:info:build    41 |     static constexpr size_t _max_inner = (
:info:build       |                                          ~
:info:build    42 |         // casting helps MSVC with warning C4293
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    43 |         static_cast<size_t>(1UL) << (n_bits_per_byte * sizeof(inner_t))
:info:build       |         ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:info:build    44 |     );
:info:build       |     ~                             
:info:build /opt/local/bin/g++-mp-14 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/opt/local/Library/Frameworks/R.framework/Resources/lib -Wl,-headerpad_max_install_names -L/opt/local/lib -lMacportsLegacySupport -Wl,-rpath,/opt/local/lib/libgcc -arch ppc -o adelie.so RcppExports.o rcpp_configs.o rcpp_constraint.o rcpp_glm.o rcpp_io.o rcpp_matrix.o rcpp_matrix_utils_blas.o rcpp_solver.o rcpp_state.o -fopenmp -F/opt/local/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
:info:build installing to /opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build/00LOCK-adelie/00new/adelie/libs
:info:build ** R
:info:build ** inst
:info:build ** byte-compile and prepare package for lazy loading
:info:build ** help
:info:build *** installing help indices
:info:build ** building package indices
:info:build ** installing vignettes
:info:build ** testing if installed package can be loaded from temporary location
:info:build sh: line 1: 38712 Bus error               R_TESTS= '/opt/local/Library/Frameworks/R.framework/Resources/bin/R' --no-save --no-restore --no-echo 2>&1 < '/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/.tmp/RtmpTNTeg1/file94892d8f633c'
:info:build  *** caught bus error ***
:info:build address 0x0, cause 'invalid alignment'
:info:build Traceback:
:info:build  1: Module(module, mustStart = TRUE, where = env)
:info:build  2: doTryCatch(return(expr), name, parentenv, handler)
:info:build  3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
:info:build  4: tryCatchList(expr, classes, parentenv, handlers)
:info:build  5: tryCatch(Module(module, mustStart = TRUE, where = env), error = function(e) e)
:info:build  6: Rcpp::loadModule(module = "adelie_core_configs", what = TRUE,     env = ns, loadNow = TRUE)
:info:build  7: (function (ns) Rcpp::loadModule(module = "adelie_core_configs", what = TRUE,     env = ns, loadNow = TRUE))(<environment>)
:info:build  8: doTryCatch(return(expr), name, parentenv, handler)
:info:build  9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
:info:build 10: tryCatchList(expr, classes, parentenv, handlers)
:info:build 11: tryCatch((function (ns) Rcpp::loadModule(module = "adelie_core_configs", what = TRUE,     env = ns, loadNow = TRUE))(<environment>), error = function(e) e)
:info:build 12: eval(substitute(tryCatch(FUN(WHERE), error = function(e) e),     list(FUN = f, WHERE = where)), where)
:info:build 13: eval(substitute(tryCatch(FUN(WHERE), error = function(e) e),     list(FUN = f, WHERE = where)), where)
:info:build 14: .doLoadActions(where, attach)
:info:build 15: methods::cacheMetaData(ns, TRUE, ns)
:info:build 16: loadNamespace(package, lib.loc)
:info:build 17: doTryCatch(return(expr), name, parentenv, handler)
:info:build 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
:info:build 19: tryCatchList(expr, classes, parentenv, handlers)
:info:build 20: tryCatch({    attr(package, "LibPath") <- which.lib.loc    ns <- loadNamespace(package, lib.loc)    env <- attachNamespace(ns, pos = pos, deps, exclude, include.only)}, error = function(e) {    P <- if (!is.null(cc <- conditionCall(e)))         paste(" in", deparse(cc)[1L])    else ""    msg <- gettextf("package or namespace load failed for %s%s:\n %s",         sQuote(package), P, conditionMessage(e))    if (logical.return && !quietly)         message(paste("Error:", msg), domain = NA)    else stop(msg, call. = FALSE, domain = NA)})
:info:build 21: library(pkg_name, lib.loc = lib, character. logical.return = TRUE)
:info:build 22: withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
:info:build 23: suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,     character. logical.return = TRUE))
:info:build 24: doTryCatch(return(expr), name, parentenv, handler)
:info:build 25: tryCatchOne(expr, names, parentenv, handlers[[1L]])
:info:build 26: tryCatchList(expr, classes, parentenv, handlers)
:info:build 27: tryCatch(expr, error = function(e) {    call <- conditionCall(e)    if (!is.null(call)) {        if (identical(call[[1L]], quote(doTryCatch)))             call <- sys.call(-4L)        dcall <- deparse(call, nlines = 1L)        prefix <- paste("Error in", dcall, ": ")        LONG <- 75L        sm <- strsplit(conditionMessage(e), "\n")[[1L]]        w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w")        if (is.na(w))             w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L],                 type = "b")        if (w > LONG)             prefix <- paste0(prefix, "\n  ")    }    else prefix <- "Error : "    msg <- paste0(prefix, conditionMessage(e), "\n")    .Internal(seterrmessage(msg[1L]))    if (!silent && isTRUE(getOption("show.error.messages"))) {        cat(msg, file = outFile)        .Inter
5B1D
nal(printDeferredWarnings())    }    invisible(structure(msg, class = "try-error", condition = e))})
:info:build 28: try(suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,     character. logical.return = TRUE)))
:info:build 29: tools:::.test_load_package("adelie", "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build/00LOCK-adelie/00new")
:info:build An irrecoverable exception occurred. R is aborting now ...
:info:build ERROR: loading failed
:info:build * removing ‘/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build/adelie’
:info:build Command failed:  cd "/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/adelie" && /opt/local/bin/R CMD INSTALL . --library=/opt/local/var/macports/build/_opt_local_ppcports_R_R-adelie/R-adelie/work/build --install-tests 
:info:build Exit code: 1
:error:build Failed to build R-adelie: command execution failed
:debug:build Error code: CHILDSTATUS 38021 1

This is not a typical failure (I built thousands of R packages and for many ran test-suites), and likely it implies a bug in the source.

@JamesYang007 Could you please have a look?
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