############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL ppcseq ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘ppcseq’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (conda-forge gcc 14.2.0-1) 14.2.0’ using C++17 g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I"../inst/include" -I"/home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/include' -I'/home/biocbuild/R/R-4.4.1/site-library/rstan/include' -I'/home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include' -I/usr/local/include -I'/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o In file included from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Core:214, from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Dense:1, from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/RcppEigenForward.h:28, from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/RcppEigen.h:25, from RcppExports.cpp:4: /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h: In function 'Packet Eigen::internal::pload(const typename unpacket_traits::type*) [with Packet = eigen_packet_wrapper; typename unpacket_traits::type = signed char]': /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h:1671:9: warning: 'void* memcpy(void*, const void*, size_t)' copying an object of non-trivial type 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} from an array of 'const int8_t' {aka 'const signed char'} [-Wclass-memaccess] 1671 | memcpy(&res, from, sizeof(Packet4c)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Core:172: /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:159:8: note: 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} declared here 159 | struct eigen_packet_wrapper | ^~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h: In function 'Packet Eigen::internal::ploadu(const typename unpacket_traits::type*) [with Packet = eigen_packet_wrapper; typename unpacket_traits::type = signed char]': /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h:1716:9: warning: 'void* memcpy(void*, const void*, size_t)' copying an object of non-trivial type 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} from an array of 'const int8_t' {aka 'const signed char'} [-Wclass-memaccess] 1716 | memcpy(&res, from, sizeof(Packet4c)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:159:8: note: 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} declared here 159 | struct eigen_packet_wrapper | ^~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I"../inst/include" -I"/home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/include' -I'/home/biocbuild/R/R-4.4.1/site-library/rstan/include' -I'/home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include' -I/usr/local/include -I'/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fPIC -g -O2 -Wall -c stanExports_negBinomial_MPI.cc -o stanExports_negBinomial_MPI.o In file included from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Core:214, from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Dense:1, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:22, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/rstaninc.hpp:3, from stanExports_negBinomial_MPI.h:23, from stanExports_negBinomial_MPI.cc:5: /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h: In function 'Packet Eigen::internal::pload(const typename unpacket_traits::type*) [with Packet = eigen_packet_wrapper; typename unpacket_traits::type = signed char]': /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h:1671:9: warning: 'void* memcpy(void*, const void*, size_t)' copying an object of non-trivial type 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} from an array of 'const int8_t' {aka 'const signed char'} [-Wclass-memaccess] 1671 | memcpy(&res, from, sizeof(Packet4c)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/Core:172: /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:159:8: note: 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} declared here 159 | struct eigen_packet_wrapper | ^~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h: In function 'Packet Eigen::internal::ploadu(const typename unpacket_traits::type*) [with Packet = eigen_packet_wrapper; typename unpacket_traits::type = signed char]': /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/arch/NEON/PacketMath.h:1716:9: warning: 'void* memcpy(void*, const void*, size_t)' copying an object of non-trivial type 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} from an array of 'const int8_t' {aka 'const signed char'} [-Wclass-memaccess] 1716 | memcpy(&res, from, sizeof(Packet4c)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:159:8: note: 'Eigen::internal::Packet4c' {aka 'struct Eigen::internal::eigen_packet_wrapper'} declared here 159 | struct eigen_packet_wrapper | ^~~~~~~~~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:18, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/shared_ptr.hpp:17, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/date_time/time_clock.hpp:17, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/date_time/posix_time/posix_time_types.hpp:10, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:15, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/rstaninc.hpp:4: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/detail/shared_count.hpp: At global scope: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/detail/shared_count.hpp:361:33: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 361 | explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) ) | ^~~~~~~~ In file included from /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/memory:78, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:7: /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:251:65: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 251 | template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R > | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:508:31: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 508 | explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn() | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:521:22: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 521 | shared_ptr( std::auto_ptr && r ): px(r.get()), pn() | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:604:34: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 604 | shared_ptr & operator=( std::auto_ptr & r ) | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:613:34: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 613 | shared_ptr & operator=( std::auto_ptr && r ) | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/smart_ptr/shared_ptr.hpp:615:38: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 615 | this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this ); | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor.hpp:13, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim.hpp:15, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/dump.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:43: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function 'void stan::math::internal::combination(std::vector&, const int&, const int&, const int&)': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:73:29: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 73 | for (std::size_t i = 0; i < p - 1; i++) { | ~~^~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:79:16: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 79 | } while (k < x); | ~~^~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function 'void stan::math::internal::combos(const int&, const double&, const int&, std::vector >&)': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:102:29: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 102 | for (std::size_t i = 1; i != choose_dimk + 1; i++) { | ~~^~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:105:31: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 105 | for (std::size_t j = 0; j != k; j++) { | ~~^~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function 'void stan::math::internal::increment(std::vector&, const int&, const double&, const std::vector&, std::vector&)': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:126:31: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 126 | for (std::size_t j = 0; j != k; j++) { | ~~^~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:132:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 132 | while ((first_zero < index.size()) && index[first_zero]) { | ~~~~~~~~~~~^~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:135:18: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 135 | if (first_zero == index.size()) { | ~~~~~~~~~~~^~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:143:31: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 143 | for (std::size_t i = 0; i != first_zero + 1; i++) { | ~~^~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function 'void stan::math::internal::signcombos(const int&, const double&, const int&, std::vector >&)': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:168:29: warning: comparison of integer expressions of different signedness: 'std::size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 168 | for (std::size_t i = 1; i != choose_dimk + 1; i++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/arg.hpp:25, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/placeholders.hpp:24, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/apply.hpp:24, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/serialization/array_optimization.hpp:18, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/serialization/array.hpp:26, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:23, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint.hpp:25, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor.hpp:16: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/assert.hpp: At global scope: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/traits.hpp:21, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/storage.hpp:27: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/detail/iterator.hpp:111:21: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 111 | public std::iterator { | ^~~~~~~~ In file included from /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_algobase.h:65, from /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/specfun.h:43, from /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/cmath:3898, from /home/biocbuild/R/R-4.4.1/site-library/Rcpp/include/Rcpp/platform/compiler.h:100, from /home/biocbuild/R/R-4.4.1/site-library/Rcpp/include/Rcpp/r/headers.h:66, from /home/biocbuild/R/R-4.4.1/site-library/Rcpp/include/RcppCommon.h:30, from /home/biocbuild/R/R-4.4.1/site-library/Rcpp/include/Rcpp.h:27, from stanExports_negBinomial_MPI.cc:3: /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/detail/iterator.hpp:149:21: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 149 | public std::iterator { | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/ublas/detail/iterator.hpp:204:21: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 204 | public std::iterator { | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/fusion/functional/invocation/detail/that_ptr.hpp:13, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/fusion/functional/invocation/invoke.hpp:52, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/fusion/functional/adapter/fused.hpp:17, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/fusion/functional/generation/make_fused.hpp:13, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/fusion/include/make_fused.hpp:11, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint/util/resize.hpp:28, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint/util/state_wrapper.hpp:26, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:33: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/get_pointer.hpp:48:40: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 48 | template T * get_pointer(std::auto_ptr const& p) | ^~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/normal_ccdf_log.hpp:5, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob.hpp:240, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim.hpp:16: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp: In function 'stan::return_type_t stan::math::normal_lccdf(const T_y&, const T_loc&, const T_scale&)': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp:68: note: '-Wmisleading-indentation' is disabled from this point onwards, since column-tracking was disabled due to the size of the code/headers 68 | } else if (scaled_diff > 8.25 * INV_SQRT_TWO) { /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp:68: note: adding '-flarge-source-files' will allow for more column-tracking support, at the expense of compilation time and memory /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/dump.hpp: In member function 'virtual std::vector > stan::io::dump::vals_c(const std::string&) const': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/dump.hpp:694: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 694 | for (comp_iter = 0, real_iter = 0; real_iter < val_r->second.first.size(); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/dump.hpp:707: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 707 | real_iter < val_i->second.first.size(); In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/util/initialize.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/diagnose/diagnose.hpp:10, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:49: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/random_var_context.hpp: In member function 'virtual std::vector > stan::io::random_var_context::vals_c(const std::string&) const': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/random_var_context.hpp:111: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 111 | for (comp_iter = 0, real_iter = 0; real_iter < val_r.size(); In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/sample/standalone_gqs.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:68: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp: In member function 'virtual std::vector > stan::io::array_var_context::vals_c(const std::string&) const': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:304: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 304 | for (comp_iter = 0, real_iter = 0; real_iter < val_r->second.first.size(); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:317: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 317 | real_iter < val_i->second.first.size(); In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_header.hpp:11, from stanExports_negBinomial_MPI.h:25: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_base_crtp.hpp: At global scope: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_base_crtp.hpp:159: warning: 'stan::math::var stan::model::model_base_crtp::log_prob(std::vector, std::allocator > >&, std::vector&, std::ostream*) const [with M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; stan::math::var = stan::math::var_value; std::ostream = std::basic_ostream]' was hidden [-Woverloaded-virtual=] 159 | inline math::var log_prob(std::vector& theta, stanExports_negBinomial_MPI.h:1847: note: by 'model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob' 1847 | log_prob(std::vector& params_r, std::vector& params_i, /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_base_crtp.hpp:154: warning: 'double stan::model::model_base_crtp::log_prob(std::vector&, std::vector&, std::ostream*) const [with M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' was hidden [-Woverloaded-virtual=] 154 | inline double log_prob(std::vector& theta, std::vector& theta_i, stanExports_negBinomial_MPI.h:1847: note: by 'model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob' 1847 | log_prob(std::vector& params_r, std::vector& params_i, /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_base_crtp.hpp:96: warning: 'stan::math::var stan::model::model_base_crtp::log_prob(Eigen::Matrix, -1, 1>&, std::ostream*) const [with M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; stan::math::var = stan::math::var_value; std::ostream = std::basic_ostream]' was hidden [-Woverloaded-virtual=] 96 | inline math::var log_prob(Eigen::Matrix& theta, stanExports_negBinomial_MPI.h:1847: note: by 'model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob' 1847 | log_prob(std::vector& params_r, std::vector& params_i, /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_base_crtp.hpp:91: warning: 'double stan::model::model_base_crtp::log_prob(Eigen::VectorXd&, std::ostream*) const [with M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; Eigen::VectorXd = Eigen::Matrix; std::ostream = std::basic_ostream]' was hidden [-Woverloaded-virtual=] 91 | inline double log_prob(Eigen::VectorXd& theta, stanExports_negBinomial_MPI.h:1847: note: by 'model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob' 1847 | log_prob(std::vector& params_r, std::vector& params_i, /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp: In instantiation of 'std::vector stan::io::array_var_context::validate_dims(const std::vector >&, T, const std::vector >&) [with T = long unsigned int]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:97:0: required from here 97 | std::vector dim_vec = validate_dims(names, values.size(), dims); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:74: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 74 | for (int i = 0; i < dims.size(); i++) { /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp: In instantiation of 'std::vector stan::io::array_var_context::validate_dims(const std::vector >&, T, const std::vector >&) [with T = long int]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:118:0: required from here 118 | std::vector dim_vec = validate_dims(names, values.size(), dims); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:74: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 74 | for (int i = 0; i < dims.size(); i++) { In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_less_or_equal.hpp:5, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_cholesky_factor.hpp:9, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim.hpp:12: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp: In instantiation of 'void stan::math::check_matching_dims(const char*, const char*, const T1&, const char*, const T2&) [with T1 = double; T2 = double; stan::require_all_not_matrix_t* = 0; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/offset_multiplier_constrain.hpp:98:24: required from 'auto stan::math::offset_multiplier_constrain(const T&, const M&, const S&, stan::return_type_t&) [with T = double; M = double; S = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = double]' 98 | check_matching_dims("offset_multiplier_constrain", "x", x, "mu", mu); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/deserializer.hpp:475:0: required from 'auto stan::io::deserializer::read_constrain_offset_multiplier(const Offset&, const Mult&, LP&, Sizes ...) [with Ret = double; bool Jacobian = false; Offset = double; Mult = int; LP = double; Sizes = {}; T = double]' 475 | return offset_multiplier_constrain(this->read(sizes...), offset, 476 | multiplier, lp); stanExports_negBinomial_MPI.h:1293:0: required from here 1292 | lambda_mu = in__.template read_constrain_offset_multiplier< 1293 | local_scalar_t__, jacobian__>(lambda_mu_mu, 1, lp__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:37:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 37 | for (int i = 1; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:45:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 45 | for (int i = 1; i < y2_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:56:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 56 | for (int i = 0; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp: In instantiation of 'void stan::math::check_matching_dims(const char*, const char*, const T1&, const char*, const T2&) [with T1 = double; T2 = int; stan::require_all_not_matrix_t* = 0; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/offset_multiplier_constrain.hpp:101:24: required from 'auto stan::math::offset_multiplier_constrain(const T&, const M&, const S&, stan::return_type_t&) [with T = double; M = double; S = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = double]' 101 | check_matching_dims("offset_multiplier_constrain", "x", x, "sigma", sigma); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/deserializer.hpp:475:0: required from 'auto stan::io::deserializer::read_constrain_offset_multiplier(const Offset&, const Mult&, LP&, Sizes ...) [with Ret = double; bool Jacobian = false; Offset = double; Mult = int; LP = double; Sizes = {}; T = double]' 475 | return offset_multiplier_constrain(this->read(sizes...), offset, 476 | multiplier, lp); stanExports_negBinomial_MPI.h:1293:0: required from here 1292 | lambda_mu = in__.template read_constrain_offset_multiplier< 1293 | local_scalar_t__, jacobian__>(lambda_mu_mu, 1, lp__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:37:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 37 | for (int i = 1; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:45:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 45 | for (int i = 1; i < y2_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:56:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 56 | for (int i = 0; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ stanExports_negBinomial_MPI.h: In instantiation of 'void model_negBinomial_MPI_namespace::model_negBinomial_MPI::unconstrain_array_impl(const VecVar&, const VecI&, VecVar&, std::ostream*) const [with VecVar = std::vector; VecI = std::vector; stan::require_vector_t* = 0; stan::require_vector_like_vt* = 0; std::ostream = std::basic_ostream]': stanExports_negBinomial_MPI.h:1875:0: required from here 1875 | unconstrain_array_impl(params_constrained, params_i, 1876 | params_unconstrained, pstream); stanExports_negBinomial_MPI.h:1422: warning: variable 'pos__' set but not used [-Wunused-but-set-variable] 1422 | int pos__ = std::numeric_limits::min(); stanExports_negBinomial_MPI.h: In instantiation of 'void model_negBinomial_MPI_namespace::model_negBinomial_MPI::unconstrain_array_impl(const VecVar&, const VecI&, VecVar&, std::ostream*) const [with VecVar = Eigen::Matrix; VecI = std::vector; stan::require_vector_t* = 0; stan::require_vector_like_vt* = 0; std::ostream = std::basic_ostream]': stanExports_negBinomial_MPI.h:1885:0: required from here 1885 | unconstrain_array_impl(params_constrained, params_i, 1886 | params_unconstrained, pstream); stanExports_negBinomial_MPI.h:1422: warning: variable 'pos__' set but not used [-Wunused-but-set-variable] 1422 | int pos__ = std::numeric_limits::min(); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp: In instantiation of 'SEXPREC* rstan::stan_fit::standalone_gqs(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]': stanExports_negBinomial_MPI.cc:30:0: required from here 30 | .method("standalone_gqs", &rstan::stan_fit ::standalone_gqs) /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1252: warning: variable 'ret' set but not used [-Wunused-but-set-variable] 1252 | int ret = stan::services::error_codes::CONFIG; In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:5, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_2F1_converges.hpp:5, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err.hpp:4: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/variational/families/normal_fullrank.hpp:47:0: required from here 47 | stan::math::check_not_nan(function, "Mean vector", mu); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)(((!(Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit)) && (! T::IsVectorAtCompileTime)) && (!(Eigen::internal::traits<_Rhs>::Flags & Eigen::RowMajorBit))))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/variational/families/normal_fullrank.hpp:74:0: required from here 74 | stan::math::check_not_nan(function, "Cholesky factor", L_chol); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:207:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare] 207 | for (size_t i = 0; i < x.rows(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:208:26: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare] 208 | for (size_t j = 0; j < x.cols(); j++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/util/validate_diag_inv_metric.hpp:21:0: required from here 21 | stan::math::check_finite("check_finite", "inv_metric", inv_metric); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_positive >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_positive.hpp:29:20: required from 'void stan::math::check_positive(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 29 | elementwise_check([](double x) { return x > 0; }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | "positive"); | ~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/util/validate_diag_inv_metric.hpp:22:0: required from here 22 | stan::math::check_positive("check_positive", "inv_metric", inv_metric); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/meta.hpp:70, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/invalid_argument.hpp:4, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/core/init_threadpool_tbb.hpp:4, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/core.hpp:4, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim.hpp:10: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_less_or_equal.hpp: In instantiation of 'void stan::math::check_less_or_equal(const char*, const char*, const T_y&, const T_high&, Idxs ...) [with T_y = long unsigned int; T_high = long int; stan::require_all_stan_scalar_t* = 0; Idxs = {}]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:79:0: required from 'std::vector stan::io::array_var_context::validate_dims(const std::vector >&, T, const std::vector >&) [with T = long int]' 79 | stan::math::check_less_or_equal("validate_dims", "array_var_context", 80 | elem_dims_total[dims.size()], array_size); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/array_var_context.hpp:118:0: required from here 118 | std::vector dim_vec = validate_dims(names, values.size(), dims); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_less_or_equal.hpp:39:20: warning: comparison of integer expressions of different signedness: 'const long unsigned int' and 'const long int' [-Wsign-compare] 39 | if (unlikely(!(y <= high))) { | ~~~^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/meta/compiler_attributes.hpp:9:41: note: in definition of macro 'unlikely' 9 | #define unlikely(x) __builtin_expect(!!(x), 0) | ^ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/sample/standalone_gqs.hpp: In instantiation of 'int stan::services::standalone_generate(const Model&, const Eigen::MatrixXd&, unsigned int, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; Eigen::MatrixXd = Eigen::Matrix]': /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1253:0: required from 'SEXPREC* rstan::stan_fit::standalone_gqs(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1253 | ret = stan::services::standalone_generate(model_, draws, 1254 | Rcpp::as(seed), interrupt, logger, *sample_writer_ptr); stanExports_negBinomial_MPI.cc:30:0: required from here 30 | .method("standalone_gqs", &rstan::stan_fit ::standalone_gqs) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/sample/standalone_gqs.hpp:55: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare] 55 | if (p_names.size() != draws.cols()) { /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/sample/standalone_gqs.hpp:71: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare] 71 | for (size_t i = 0; i < draws.rows(); ++i) { In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/assert.hpp:35, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:20, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:19, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/size_type.hpp:20, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/size.hpp:21, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/functions.hpp:20, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range.hpp:18, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/numeric/odeint/util/resize.hpp:22: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::constraint::failed() [with Model = boost::algorithm::FinderConcept >, __gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:81:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:65:52: warning: 'this' pointer is null [-Wnonnull] 65 | static void failed() { ((Model*)0)->constraints(); } | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:26, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:16, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string.hpp:23, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:4, from /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:46: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/concept.hpp:40: note: in a call to non-static member function 'void boost::algorithm::FinderConcept::constraints() [with FinderT = boost::algorithm::detail::token_finderF >; IteratorT = __gnu_cxx::__normal_iterator >]' 40 | void constraints() /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::constraint::failed() [with Model = boost::algorithm::FinderConcept, __gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/find_format.hpp:98:0: required from 'void boost::algorithm::find_format(SequenceT&, FinderT, FormatterT) [with SequenceT = std::__cxx11::basic_string; FinderT = detail::first_finderF; FormatterT = detail::const_formatF >]' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/replace.hpp:179:0: required from 'void boost::algorithm::replace_first(SequenceT&, const Range1T&, const Range2T&) [with SequenceT = std::__cxx11::basic_string; Range1T = char [11]; Range2T = char [1]]' 179 | ::boost::algorithm::find_format( 180 | Input, 181 | ::boost::algorithm::first_finder(Search), 182 | ::boost::algorithm::const_formatter(Format) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:133:0: required from here 133 | boost::replace_first(value, " (Default)", ""); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:65:52: warning: 'this' pointer is null [-Wnonnull] 65 | static void failed() { ((Model*)0)->constraints(); } | ~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/concept.hpp:40: note: in a call to non-static member function 'void boost::algorithm::FinderConcept::constraints() [with FinderT = boost::algorithm::detail::first_finderF; IteratorT = __gnu_cxx::__normal_iterator >]' 40 | void constraints() /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::constraint::failed() [with Model = boost::algorithm::FormatterConcept >, boost::algorithm::detail::first_finderF, __gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/find_format.hpp:103:0: required from 'void boost::algorithm::find_format(SequenceT&, FinderT, FormatterT) [with SequenceT = std::__cxx11::basic_string; FinderT = detail::first_finderF; FormatterT = detail::const_formatF >]' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/replace.hpp:179:0: required from 'void boost::algorithm::replace_first(SequenceT&, const Range1T&, const Range2T&) [with SequenceT = std::__cxx11::basic_string; Range1T = char [11]; Range2T = char [1]]' 179 | ::boost::algorithm::find_format( 180 | Input, 181 | ::boost::algorithm::first_finder(Search), 182 | ::boost::algorithm::const_formatter(Format) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:133:0: required from here 133 | boost::replace_first(value, " (Default)", ""); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:65:52: warning: 'this' pointer is null [-Wnonnull] 65 | static void failed() { ((Model*)0)->constraints(); } | ~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/concept.hpp:65: note: in a call to non-static member function 'void boost::algorithm::FormatterConcept::constraints() [with FormatterT = boost::algorithm::detail::const_formatF >; FinderT = boost::algorithm::detail::first_finderF; IteratorT = __gnu_cxx::__normal_iterator >]' 65 | void constraints() In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/hypergeometric_pFq.hpp:11, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:18, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:14, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun.hpp:129, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim.hpp:14: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/hypergeometric_pFq_checked_series.hpp: In instantiation of 'std::pair<_ForwardIterator, _ForwardIterator> boost::math::detail::hypergeometric_pFq_checked_series_impl(const Seq&, const Seq&, const Real&, const Policy&, const Terminal&, long long int&) [with Seq = std::vector; Real = long double; Policy = boost::math::policies::policy; Terminal = iteration_terminator]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/hypergeometric_pFq.hpp:61:107: required from 'typename boost::math::tools::promote_args::type boost::math::hypergeometric_pFq(const Seq&, const Seq&, const Real&, Real*, const Policy&) [with Seq = std::vector; Real = double; Policy = policies::policy; typename tools::promote_args::type = double; typename Seq::value_type = double]' 61 | std::pair r = boost::math::detail::hypergeometric_pFq_checked_series_impl(aj, bj, value_type(z), pol, boost::math::detail::iteration_terminator(boost::math::policies::get_max_series_iterations()), scale); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/hypergeometric_pFq.hpp:72:35: required from 'typename boost::math::tools::promote_args::type boost::math::hypergeometric_pFq(const Seq&, const Seq&, const Real&, Real*) [with Seq = std::vector; Real = double; typename tools::promote_args::type = double; typename Seq::value_type = double]' 72 | return hypergeometric_pFq(aj, bj, z, p_abs_error, boost::math::policies::policy<>()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:55:41: required from 'stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]' 55 | return boost::math::hypergeometric_pFq( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 56 | std::vector(a_ref.data(), a_ref.data() + a_ref.size()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 | std::vector(b_ref.data(), b_ref.data() + b_ref.size()), z); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:125:28: required from 'auto stan::math::hypergeometric_3F2(const Ta&, const Tb&, const Tz&) [with Ta = std::vector; Tb = std::vector; Tz = double; stan::require_all_vector_t* = 0; stan::require_stan_scalar_t* = 0]' 125 | return hypergeometric_pFq(to_vector(a), to_vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:148:28: required from 'auto stan::math::hypergeometric_3F2(const std::initializer_list<_Tp>&, const std::initializer_list<_Value>&, const Tz&) [with Ta = double; Tb = double; Tz = double; stan::require_all_stan_scalar_t* = 0]' 148 | return hypergeometric_3F2(std::vector(a), std::vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/fun/inv_inc_beta.hpp:77:0: required from here 77 | + log(hypergeometric_3F2({a_val, a_val, one_m_b}, {ap1, ap1}, w)) /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/hypergeometric_pFq_checked_series.hpp:122:28: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 122 | std::pair hypergeometric_pFq_checked_series_impl(const Seq& aj, const Seq& bj, const Real& z, const Policy& pol, const Terminal& termination, long long& log_scale) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:35:15: required from 'stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]' 35 | check_finite("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from 'stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]' 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from 'TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]' 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from 'auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]' 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:36:15: required from 'stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]' 36 | check_finite("hypergeometric_pFq", "b", b_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from 'stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]' 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from 'TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]' 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from 'auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]' 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:39:16: required from 'stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]' 39 | check_not_nan("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from 'stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]' 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from 'TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]' 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from 'auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]' 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:40:16: required from 'stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]' 40 | check_not_nan("hypergeometric_pFq", "b", b_ref); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from 'stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]' 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from 'TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]' 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from 'auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]' 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:1721, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/binomial.hpp:15, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/choose.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun.hpp:46: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp: In instantiation of 'boost::math::detail::temme_root_finder::temme_root_finder(T, T) [with T = double]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:304:7: required from 'T boost::math::detail::temme_method_2_ibeta_inverse(T, T, T, T, T, const Policy&) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 304 | temme_root_finder(-lu, alpha), x, lower, upper, policies::digits() / 2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:615:48: required from 'T boost::math::detail::ibeta_inv_imp(T, T, T, T, const Policy&, T*) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 615 | x = temme_method_2_ibeta_inverse(a, b, p, r, theta, pol); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:992:30: required from 'boost::math::tools::promote_args_t boost::math::ibeta_inv(T1, T2, T3, T4*, const Policy&) [with T1 = double; T2 = double; T3 = double; T4 = double; Policy = policies::policy, policies::pole_error, policies::promote_double, policies::digits2<0>, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy>; tools::promote_args_t = double]' 992 | rx = detail::ibeta_inv_imp( | ~~~~~~~~~~~~~~~~~~~~~^ 993 | static_cast(a), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 994 | static_cast(b), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 995 | static_cast(p), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 996 | static_cast(1 - p), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 997 | forwarding_policy(), &ry); | ~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:1023:20: required from 'boost::math::tools::promote_args_t boost::math::ibeta_inv(RT1, RT2, RT3, const Policy&) [with RT1 = double; RT2 = double; RT3 = double; Policy = policies::policy, policies::pole_error, policies::promote_double, policies::digits2<0>, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy>; tools::promote_args_t = double]' 1023 | return ibeta_inv(a, b, p, static_cast(nullptr), pol); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/inv_inc_beta.hpp:32:32: required from here 32 | return boost::math::ibeta_inv(a, b, p, boost_policy_t<>()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:29:15: warning: unused variable 'x_extrema' [-Wunused-variable] 29 | const T x_extrema = 1 / (1 + a); | ^~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp: In instantiation of 'void stan::math::check_matching_dims(const char*, const char*, const T1&, const char*, const T2&) [with T1 = var_value; T2 = double; stan::require_all_not_matrix_t* = 0; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/offset_multiplier_constrain.hpp:98:24: required from 'auto stan::math::offset_multiplier_constrain(const T&, const M&, const S&, stan::return_type_t&) [with T = var_value; M = double; S = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 98 | check_matching_dims("offset_multiplier_constrain", "x", x, "mu", mu); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/deserializer.hpp:475:0: required from 'auto stan::io::deserializer::read_constrain_offset_multiplier(const Offset&, const Mult&, LP&, Sizes ...) [with Ret = stan::math::var_value; bool Jacobian = true; Offset = double; Mult = int; LP = stan::math::var_value; Sizes = {}; T = stan::math::var_value]' 475 | return offset_multiplier_constrain(this->read(sizes...), offset, 476 | multiplier, lp); stanExports_negBinomial_MPI.h:1151:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1150 | lambda_mu = in__.template read_constrain_offset_multiplier< 1151 | local_scalar_t__, jacobian__>(lambda_mu_mu, 1, lp__); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:37:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 37 | for (int i = 1; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:45:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 45 | for (int i = 1; i < y2_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:56:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 56 | for (int i = 0; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp: In instantiation of 'void stan::math::check_matching_dims(const char*, const char*, const T1&, const char*, const T2&) [with T1 = var_value; T2 = int; stan::require_all_not_matrix_t* = 0; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/offset_multiplier_constrain.hpp:101:24: required from 'auto stan::math::offset_multiplier_constrain(const T&, const M&, const S&, stan::return_type_t&) [with T = var_value; M = double; S = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 101 | check_matching_dims("offset_multiplier_constrain", "x", x, "sigma", sigma); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/deserializer.hpp:475:0: required from 'auto stan::io::deserializer::read_constrain_offset_multiplier(const Offset&, const Mult&, LP&, Sizes ...) [with Ret = stan::math::var_value; bool Jacobian = true; Offset = double; Mult = int; LP = stan::math::var_value; Sizes = {}; T = stan::math::var_value]' 475 | return offset_multiplier_constrain(this->read(sizes...), offset, 476 | multiplier, lp); stanExports_negBinomial_MPI.h:1151:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1150 | lambda_mu = in__.template read_constrain_offset_multiplier< 1151 | local_scalar_t__, jacobian__>(lambda_mu_mu, 1, lp__); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:37:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 37 | for (int i = 1; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:45:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 45 | for (int i = 1; i < y2_d.size(); i++) { | ~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_matching_dims.hpp:56:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 56 | for (int i = 0; i < y1_d.size(); i++) { | ~~^~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/detail/bessel_jy.hpp:14, from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/bessel.hpp:20, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/bessel_first_kind.hpp:6, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun.hpp:31: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp: In instantiation of 'boost::math::detail::upper_incomplete_gamma_fract::result_type boost::math::detail::upper_incomplete_gamma_fract::operator()() [with T = double; result_type = std::pair]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:217:20: required from 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_a(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::upper_incomplete_gamma_fract; U = double; typename detail::fraction_traits::result_type = double; uintmax_t = long unsigned int]' 217 | value_type v = g(); | ~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:252:31: required from 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_a(Gen&, const U&) [with Gen = boost::math::detail::upper_incomplete_gamma_fract; U = double; typename detail::fraction_traits::result_type = double]' 252 | return continued_fraction_a(g, factor, max_iter); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp:314:68: required from 'T boost::math::detail::upper_gamma_fraction(T, T, T) [with T = double]' 314 | return 1 / (z - a + 1 + boost::math::tools::continued_fraction_a(f, eps)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp:1176:44: required from 'T boost::math::detail::gamma_incomplete_imp(T, T, bool, bool, const Policy&, T*) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 1176 | result += log(upper_gamma_fraction(a, x, policies::get_epsilon())); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp:2130:35: required from 'boost::math::tools::promote_args_t boost::math::gamma_p(RT1, RT2, const Policy&) [with RT1 = double; RT2 = double; Policy = policies::policy, policies::pole_error, policies::promote_double, policies::digits2<0>, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy>; tools::promote_args_t = double]' 2130 | detail::gamma_incomplete_imp(static_cast(a), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2131 | static_cast(z), true, false, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2132 | forwarding_policy(), static_cast(nullptr)), "gamma_p<%1%>(%1%, %1%)"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/gamma_p.hpp:76:30: required from here 76 | return boost::math::gamma_p(z, a, boost_policy_t<>()); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp:299:16: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 299 | result_type operator()() | ^~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/owens_t.hpp:6, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun.hpp:260: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp: In instantiation of 'std::pair<_FIter, _FIter> boost::math::detail::owens_t_T1_accelerated(T, T, const Policy&) [with T = long double; Policy = boost::math::policies::policy]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:874:46: required from 'RealType boost::math::detail::owens_t_dispatch(RealType, RealType, RealType, const Policy&, const std::integral_constant&) [with RealType = long double; Policy = boost::math::policies::policy]' 874 | p1 = owens_t_T1_accelerated(h, a, forwarding_policy()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:979:36: required from 'RealType boost::math::detail::owens_t_dispatch(RealType, RealType, RealType, const Policy&) [with RealType = long double; Policy = boost::math::policies::policy]' 979 | return owens_t_dispatch(h, a, ah, pol, tag_type()); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:1000:38: required from 'RealType boost::math::detail::owens_t(RealType, RealType, const Policy&) [with RealType = long double; Policy = boost::math::policies::policy]' 1000 | val = owens_t_dispatch(h, fabs_a, fabs_ah, pol); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:1072:86: required from 'boost::math::tools::promote_args_t boost::math::owens_t(T1, T2, const Policy&) [with T1 = double; T2 = double; Policy = policies::policy; tools::promote_args_t = double]' 1072 | return policies::checked_narrowing_cast(detail::owens_t(static_cast(h), static_cast(a), pol), "boost::math::owens_t<%1%>(%1%,%1%)"); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:1078:24: required from 'boost::math::tools::promote_args_t boost::math::owens_t(T1, T2) [with T1 = double; T2 = double; tools::promote_args_t = double]' 1078 | return owens_t(h, a, policies::policy<>()); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/owens_t.hpp:58:72: required from here 58 | inline double owens_t(double h, double a) { return boost::math::owens_t(h, a); } | ~~~~~~~~~~~~~~~~~~~~^~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/owens_t.hpp:543:26: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 543 | std::pair owens_t_T1_accelerated(T h, T a, const Policy& pol) | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing/rvalue_varmat.hpp:7, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing.hpp:13, from /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/model_header.hpp:13: /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing/rvalue.hpp: In instantiation of 'stan::plain_type_t stan::model::rvalue(EigMat&&, const char*, const Idx&, const index_multi&) [with EigMat = const Eigen::Matrix, -1, -1>&; Idx = index_omni; stan::require_eigen_dense_dynamic_t* = 0; stan::require_not_same_t::type, index_uni>* = 0; stan::plain_type_t = Eigen::Matrix, -1, -1>]': stanExports_negBinomial_MPI.h:400:0: required from 'std::vector::type, typename stan::base_type::type, typename stan::base_type::type>::type, -1, 1> > model_negBinomial_MPI_namespace::get_reference_parameters_MPI(const int&, const int&, const std::vector&, const std::vector >&, const T4__&, const T5__&, const T6__&, std::ostream*) [with T4__ = Eigen::Matrix, -1, -1>; T5__ = Eigen::Matrix, -1, 1>; T6__ = Eigen::Map, 0, Eigen::Stride<0, 0> >; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, typename stan::base_type::type>::type = stan::math::var_value; typename stan::base_type::type = stan::math::var_value; typename stan::base_type::type = stan::math::var_value; typename stan::base_type::type = double; std::ostream = std::basic_ostream]' 400 | stan::model::rvalue(lambda_log, "lambda_log", 401 | stan::model::index_omni(), 402 | stan::model::index_multi( 403 | stan::model::rvalue(G_ind, "G_ind", 404 | stan::model::index_uni(i), 405 | stan::model::index_min_max(1, 406 | stan::model::rvalue(G_per_shard, "G_per_shard", 407 | stan::model::index_uni(i))))))), stanExports_negBinomial_MPI.h:1248:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing/rvalue.hpp:559: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 559 | for (int j = 0; j < col_idx.ns_.size(); ++j) { /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp: In instantiation of 'boost::math::detail::ibeta_fraction2_t::result_type boost::math::detail::ibeta_fraction2_t::operator()() [with T = double; result_type = std::pair]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:123:20: required from 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_b(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::ibeta_fraction2_t; U = double; typename detail::fraction_traits::result_type = double; uintmax_t = long unsigned int]' 123 | value_type v = g(); | ~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:156:31: required from 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_b(Gen&, const U&) [with Gen = boost::math::detail::ibeta_fraction2_t; U = double; typename detail::fraction_traits::result_type = double]' 156 | return continued_fraction_b(g, factor, max_terms); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:830:54: required from 'T boost::math::detail::ibeta_fraction2(T, T, T, T, const Policy&, bool, T*) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 830 | T fract = boost::math::tools::continued_fraction_b(f, boost::math::policies::get_epsilon()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:1472:36: required from 'T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool, T*) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 1472 | fract = ibeta_fraction2(a, b, x, y, pol, normalised, p_derivative); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:1509:20: required from 'T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool) [with T = double; Policy = boost::math::policies::policy, boost::math::policies::promote_float, boost::math::policies::promote_double, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]' 1509 | return ibeta_imp(a, b, x, pol, inv, normalised, static_cast(nullptr)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:1663:93: required from 'boost::math::tools::promote_args_t boost::math::ibeta(RT1, RT2, RT3, const Policy&) [with RT1 = double; RT2 = double; RT3 = double; Policy = policies::policy, policies::pole_error, policies::promote_double, policies::digits2<0>, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy, policies::default_policy>; tools::promote_args_t = double]' 1663 | return policies::checked_narrowing_cast(detail::ibeta_imp(static_cast(a), static_cast(b), static_cast(x), forwarding_policy(), false, true), "boost::math::ibeta<%1%>(%1%,%1%,%1%)"); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/fun/inc_beta.hpp:29:28: required from here 29 | return boost::math::ibeta(a, b, x, boost_policy_t<>()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/beta.hpp:793:16: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 793 | result_type operator()() | ^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing/rvalue.hpp: In instantiation of 'stan::plain_type_t stan::model::rvalue(EigMat&&, const char*, const Idx&, const index_multi&) [with EigMat = const Eigen::Matrix&; Idx = index_omni; stan::require_eigen_dense_dynamic_t* = 0; stan::require_not_same_t::type, index_uni>* = 0; stan::plain_type_t = Eigen::Matrix]': stanExports_negBinomial_MPI.h:400:0: required from 'std::vector::type, typename stan::base_type::type, typename stan::base_type::type>::type, -1, 1> > model_negBinomial_MPI_namespace::get_reference_parameters_MPI(const int&, const int&, const std::vector&, const std::vector >&, const T4__&, const T5__&, const T6__&, std::ostream*) [with T4__ = Eigen::Matrix; T5__ = Eigen::Matrix; T6__ = Eigen::Map, 0, Eigen::Stride<0, 0> >; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, typename stan::base_type::type>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]' 400 | stan::model::rvalue(lambda_log, "lambda_log", 401 | stan::model::index_omni(), 402 | stan::model::index_multi( 403 | stan::model::rvalue(G_ind, "G_ind", 404 | stan::model::index_uni(i), 405 | stan::model::index_min_max(1, 406 | stan::model::rvalue(G_per_shard, "G_per_shard", 407 | stan::model::index_uni(i))))))), stanExports_negBinomial_MPI.h:1248:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; VecR = std::vector; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = double; std::ostream = std::basic_ostream]' 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; T_ = double; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/optimize/newton.hpp:56:0: required from 'int stan::services::optimize::newton(Model&, const stan::io::var_context&, unsigned int, unsigned int, double, int, bool, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; bool jacobian = false]' 56 | lp = model.template log_prob(cont_vector, disc_vector, 57 | &message); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:502:0: required from 'int rstan::{anonymous}::command(rstan::stan_args&, Model&, Rcpp::List&, const std::vector&, const std::vector >&, RNG_t&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; Rcpp::List = Rcpp::Vector<19>]' 502 | = stan::services::optimize::newton(model, *init_context_ptr, 503 | random_seed, id, init_radius, 504 | num_iterations, 505 | save_iterations, 506 | interrupt, logger, 507 | init_writer, sample_writer); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1215:0: required from 'SEXPREC* rstan::stan_fit::call_sampler(SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1215 | ret = command(args, model_, holder, names_oi_tidx_, 1216 | fnames_oi_, base_rng); stanExports_negBinomial_MPI.cc:15:0: required from here 15 | .method("call_sampler", &rstan::stan_fit ::call_sampler) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/indexing/rvalue.hpp:559: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 559 | for (int j = 0; j < col_idx.ns_.size(); ++j) { /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Array&)::; T = Eigen::Array; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Array]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/skew_normal_lpdf.hpp:49:0: required from 'stan::return_type_t stan::math::skew_normal_lpdf(const T_y&, const T_loc&, const T_scale&, const T_shape&) [with bool propto = true; T_y = Eigen::Matrix, -1, 1>; T_loc = var_value; T_scale = var_value; T_shape = var_value; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 49 | check_not_nan(function, "Random variable", y_val); stanExports_negBinomial_MPI.h:1224:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1224 | lp_accum__.add(stan::math::skew_normal_lpdf( 1225 | stan::math::to_vector(intercept), (lambda_mu + 1226 | lambda_mu_mu), lambda_sigma, lambda_skew)); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Array&)::; T = Eigen::Array; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Array]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/double_exponential_lpdf.hpp:69:15: required from 'stan::return_type_t stan::math::double_exponential_lpdf(const T_y&, const T_loc&, const T_scale&) [with bool propto = true; T_y = Eigen::Matrix, 1, -1>; T_loc = int; T_scale = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 69 | check_finite(function, "Random variable", y_val); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1230:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1230 | lp_accum__.add(stan::math::double_exponential_lpdf( 1231 | alpha_sub_1, 0, 1)); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan > >(const char*, const char*, const Eigen::ArrayWrapper >&)::; T = Eigen::ArrayWrapper >; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from 'void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::ArrayWrapper >]' 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/skew_normal_lpdf.hpp:49:0: required from 'stan::return_type_t stan::math::skew_normal_lpdf(const T_y&, const T_loc&, const T_scale&, const T_shape&) [with bool propto = false; T_y = Eigen::Matrix; T_loc = double; T_scale = double; T_shape = double; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = double]' 49 | check_not_nan(function, "Random variable", y_val); stanExports_negBinomial_MPI.h:1224:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; VecR = std::vector; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = double; std::ostream = std::basic_ostream]' 1224 | lp_accum__.add(stan::math::skew_normal_lpdf( 1225 | stan::math::to_vector(intercept), (lambda_mu + 1226 | lambda_mu_mu), lambda_sigma, lambda_skew)); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; T_ = double; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/optimize/newton.hpp:56:0: required from 'int stan::services::optimize::newton(Model&, const stan::io::var_context&, unsigned int, unsigned int, double, int, bool, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; bool jacobian = false]' 56 | lp = model.template log_prob(cont_vector, disc_vector, 57 | &message); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:502:0: required from 'int rstan::{anonymous}::command(rstan::stan_args&, Model&, Rcpp::List&, const std::vector&, const std::vector >&, RNG_t&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; Rcpp::List = Rcpp::Vector<19>]' 502 | = stan::services::optimize::newton(model, *init_context_ptr, 503 | random_seed, id, init_radius, 504 | num_iterations, 505 | save_iterations, 506 | interrupt, logger, 507 | init_writer, sample_writer); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1215:0: required from 'SEXPREC* rstan::stan_fit::call_sampler(SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1215 | ret = command(args, model_, holder, names_oi_tidx_, 1216 | fnames_oi_, base_rng); stanExports_negBinomial_MPI.cc:15:0: required from here 15 | .method("call_sampler", &rstan::stan_fit ::call_sampler) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase > >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite > > >(const char*, const char*, const Eigen::ArrayWrapper > >&)::; T = Eigen::ArrayWrapper > >; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::ArrayWrapper > >]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/double_exponential_lpdf.hpp:69:15: required from 'stan::return_type_t stan::math::double_exponential_lpdf(const T_y&, const T_loc&, const T_scale&) [with bool propto = false; T_y = Eigen::Matrix; T_loc = int; T_scale = int; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = double]' 69 | check_finite(function, "Random variable", y_val); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1230:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; VecR = std::vector; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = double; std::ostream = std::basic_ostream]' 1230 | lp_accum__.add(stan::math::double_exponential_lpdf( 1231 | alpha_sub_1, 0, 1)); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; T_ = double; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/optimize/newton.hpp:56:0: required from 'int stan::services::optimize::newton(Model&, const stan::io::var_context&, unsigned int, unsigned int, double, int, bool, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; bool jacobian = false]' 56 | lp = model.template log_prob(cont_vector, disc_vector, 57 | &message); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:502:0: required from 'int rstan::{anonymous}::command(rstan::stan_args&, Model&, Rcpp::List&, const std::vector&, const std::vector >&, RNG_t&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; Rcpp::List = Rcpp::Vector<19>]' 502 | = stan::services::optimize::newton(model, *init_context_ptr, 503 | random_seed, id, init_radius, 504 | num_iterations, 505 | save_iterations, 506 | interrupt, logger, 507 | init_writer, sample_writer); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1215:0: required from 'SEXPREC* rstan::stan_fit::call_sampler(SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1215 | ret = command(args, model_, holder, names_oi_tidx_, 1216 | fnames_oi_, base_rng); stanExports_negBinomial_MPI.cc:15:0: required from here 15 | .method("call_sampler", &rstan::stan_fit ::call_sampler) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase > > >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ stanExports_negBinomial_MPI.h: In instantiation of 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]': stanExports_negBinomial_MPI.h:242:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce_functor__::operator()(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) const [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 242 | return lp_reduce(global_parameters, local_parameters, real_data, 243 | int_data, pstream__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_reduce.hpp:68:0: required from 'stan::math::matrix_d stan::math::internal::map_rect_reduce >::operator()(const stan::math::vector_d&, const stan::math::vector_d&, const std::vector&, const std::vector&, std::ostream*) const [with F = model_negBinomial_MPI_namespace::lp_reduce_functor__; stan::math::matrix_d = Eigen::Matrix; stan::math::vector_d = Eigen::Matrix; std::ostream = std::basic_ostream]' 68 | vector_v fx_v = F()(shared_params, job_specific_params_v, x_r, x_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_concurrent.hpp:41:0: required from 'Eigen::Matrix::type, -1, 1> stan::math::internal::map_rect_concurrent(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = const Eigen::Map, 0, Eigen::Stride<0, 0> >&; T_job_param = stan::math::var_value; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 41 | job_output[i] = ReduceF()(shared_params_dbl, value_of(job_params[i]), 42 | x_r[i], x_i[i], msgs); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect.hpp:184:52: required from 'Eigen::Matrix::type, -1, 1> stan::math::map_rect(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = Eigen::Map, 0, Eigen::Stride<0, 0> >; T_job_param = var_value; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = var_value; std::ostream = std::basic_ostream]' 183 | return internal::map_rect_concurrent(shared_params_ref, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 185 | job_params, x_r, x_i, msgs); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1246:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1246 | stan::math::map_rect<1, lp_reduce_functor__>( 1247 | global_parameters, 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, 1251 | counts_package, pstream__))); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) stanExports_negBinomial_MPI.h:438: warning: unused variable 'global_parameters' [-Wunused-variable] 438 | const auto& global_parameters = stan::math::to_ref(global_parameters_arg__); stanExports_negBinomial_MPI.h: In instantiation of 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]': stanExports_negBinomial_MPI.h:242:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce_functor__::operator()(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) const [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]' 242 | return lp_reduce(global_parameters, local_parameters, real_data, 243 | int_data, pstream__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect_reduce.hpp:47:15: required from 'stan::math::matrix_d stan::math::internal::map_rect_reduce::operator()(const stan::math::vector_d&, const stan::math::vector_d&, const std::vector&, const std::vector&, std::ostream*) const [with F = model_negBinomial_MPI_namespace::lp_reduce_functor__; stan::math::matrix_d = Eigen::Matrix; stan::math::vector_d = Eigen::Matrix; std::ostream = std::basic_ostream]' 47 | return F()(shared_params, job_specific_params, x_r, x_i, msgs).transpose(); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_concurrent.hpp:41:0: required from 'Eigen::Matrix::type, -1, 1> stan::math::internal::map_rect_concurrent(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = const Eigen::Map, 0, Eigen::Stride<0, 0> >&; T_job_param = double; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = double; std::ostream = std::basic_ostream]' 41 | job_output[i] = ReduceF()(shared_params_dbl, value_of(job_params[i]), 42 | x_r[i], x_i[i], msgs); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect.hpp:184:52: required from 'Eigen::Matrix::type, -1, 1> stan::math::map_rect(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = Eigen::Map, 0, Eigen::Stride<0, 0> >; T_job_param = double; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = double; std::ostream = std::basic_ostream]' 183 | return internal::map_rect_concurrent(shared_params_ref, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 185 | job_params, x_r, x_i, msgs); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1246:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; VecR = std::vector; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = double; std::ostream = std::basic_ostream]' 1246 | stan::math::map_rect<1, lp_reduce_functor__>( 1247 | global_parameters, 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, 1251 | counts_package, pstream__))); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; T_ = double; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/optimize/newton.hpp:56:0: required from 'int stan::services::optimize::newton(Model&, const stan::io::var_context&, unsigned int, unsigned int, double, int, bool, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; bool jacobian = false]' 56 | lp = model.template log_prob(cont_vector, disc_vector, 57 | &message); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:502:0: required from 'int rstan::{anonymous}::command(rstan::stan_args&, Model&, Rcpp::List&, const std::vector&, const std::vector >&, RNG_t&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; Rcpp::List = Rcpp::Vector<19>]' 502 | = stan::services::optimize::newton(model, *init_context_ptr, 503 | random_seed, id, init_radius, 504 | num_iterations, 505 | save_iterations, 506 | interrupt, logger, 507 | init_writer, sample_writer); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1215:0: required from 'SEXPREC* rstan::stan_fit::call_sampler(SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1215 | ret = command(args, model_, holder, names_oi_tidx_, 1216 | fnames_oi_, base_rng); stanExports_negBinomial_MPI.cc:15:0: required from here 15 | .method("call_sampler", &rstan::stan_fit ::call_sampler) stanExports_negBinomial_MPI.h:438: warning: unused variable 'global_parameters' [-Wunused-variable] 438 | const auto& global_parameters = stan::math::to_ref(global_parameters_arg__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite, -1, 1> >(const char*, const char*, const Eigen::Matrix, -1, 1>&)::; T = Eigen::Matrix, -1, 1>; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from 'void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix, -1, 1>]' 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/neg_binomial_2_log_lpmf.hpp:46:15: required from 'stan::return_type_t stan::math::neg_binomial_2_log_lpmf(const T_n&, const T_log_location&, const T_precision&) [with bool propto = false; T_n = std::vector; T_log_location = Eigen::Matrix, -1, 1>; T_precision = Eigen::Matrix, -1, 1>; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 46 | check_finite(function, "Log location parameter", eta_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:571:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 571 | lp = (stan::math::neg_binomial_2_log_lpmf( 572 | stan::model::rvalue(counts, "counts", 573 | stan::model::index_min_max(1, 574 | stan::model::rvalue(symbol_end, "symbol_end", 575 | stan::model::index_uni((G_per_shard + 1))))), 576 | stan::math::add( 577 | stan::model::rvalue(exposure_rate, "exposure_rate", 578 | stan::model::index_multi( 579 | stan::model::rvalue(sample_idx, "sample_idx", 580 | stan::model::index_min_max(1, 581 | stan::model::rvalue(symbol_end, "symbol_end", 582 | stan::model::index_uni((G_per_shard + 1))))))), 583 | lambda_MPI), sigma_MPI_c) stanExports_negBinomial_MPI.h:242:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce_functor__::operator()(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) const [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 242 | return lp_reduce(global_parameters, local_parameters, real_data, 243 | int_data, pstream__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_reduce.hpp:68:0: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect.hpp:184:52: required from 'Eigen::Matrix::type, -1, 1> stan::math::map_rect(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = Eigen::Map, 0, Eigen::Stride<0, 0> >; T_job_param = var_value; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = var_value; std::ostream = std::basic_ostream]' 183 | return internal::map_rect_concurrent(shared_params_ref, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 185 | job_params, x_r, x_i, msgs); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1246:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1246 | stan::math::map_rect<1, lp_reduce_functor__>( 1247 | global_parameters, 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, 1251 | counts_package, pstream__))); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_positive_finite, -1, 1> >(const char*, const char*, const Eigen::Matrix, -1, 1>&)::; T = Eigen::Matrix, -1, 1>; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_positive_finite.hpp:24:20: required from 'void stan::math::check_positive_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix, -1, 1>]' 24 | elementwise_check([](double x) { return x > 0 && std::isfinite(x); }, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 25 | function, name, y, "positive finite"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/neg_binomial_2_log_lpmf.hpp:47:24: required from 'stan::return_type_t stan::math::neg_binomial_2_log_lpmf(const T_n&, const T_log_location&, const T_precision&) [with bool propto = false; T_n = std::vector; T_log_location = Eigen::Matrix, -1, 1>; T_precision = Eigen::Matrix, -1, 1>; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = var_value]' 47 | check_positive_finite(function, "Precision parameter", phi_ref); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:571:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 571 | lp = (stan::math::neg_binomial_2_log_lpmf( 572 | stan::model::rvalue(counts, "counts", 573 | stan::model::index_min_max(1, 574 | stan::model::rvalue(symbol_end, "symbol_end", 575 | stan::model::index_uni((G_per_shard + 1))))), 576 | stan::math::add( 577 | stan::model::rvalue(exposure_rate, "exposure_rate", 578 | stan::model::index_multi( 579 | stan::model::rvalue(sample_idx, "sample_idx", 580 | stan::model::index_min_max(1, 581 | stan::model::rvalue(symbol_end, "symbol_end", 582 | stan::model::index_uni((G_per_shard + 1))))))), 583 | lambda_MPI), sigma_MPI_c) stanExports_negBinomial_MPI.h:242:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce_functor__::operator()(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) const [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix, -1, 1>; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = stan::math::var_value; typename stan::base_type::type = double; typename stan::base_type::type = stan::math::var_value; std::ostream = std::basic_ostream]' 242 | return lp_reduce(global_parameters, local_parameters, real_data, 243 | int_data, pstream__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_reduce.hpp:68:0: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect.hpp:184:52: required from 'Eigen::Matrix::type, -1, 1> stan::math::map_rect(const T_shared_param&, const std::vector >&, const std::vector >&, const std::vector >&, std::ostream*) [with int call_id = 1; F = model_negBinomial_MPI_namespace::lp_reduce_functor__; T_shared_param = Eigen::Map, 0, Eigen::Stride<0, 0> >; T_job_param = var_value; stan::require_eigen_col_vector_t* = 0; typename stan::return_type::type = var_value; std::ostream = std::basic_ostream]' 183 | return internal::map_rect_concurrent(shared_params_ref, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 185 | job_params, x_r, x_i, msgs); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:1246:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; VecR = std::vector, std::allocator > >; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = stan::math::var_value; std::ostream = std::basic_ostream]' 1246 | stan::math::map_rect<1, lp_reduce_functor__>( 1247 | global_parameters, 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, 1251 | counts_package, pstream__))); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = true; bool jacobian__ = true; T_ = stan::math::var_value; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/model/log_prob_grad.hpp:40:0: required from 'double stan::model::log_prob_grad(const M&, std::vector&, std::vector&, std::vector&, std::ostream*) [with bool propto = true; bool jacobian_adjust_transform = true; M = model_negBinomial_MPI_namespace::model_negBinomial_MPI; std::ostream = std::basic_ostream]' 40 | var adLogProb = model.template log_prob( 41 | ad_params_r, params_i, msgs); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1183:0: required from 'SEXPREC* rstan::stan_fit::grad_log_prob(SEXP, SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1183 | lp = stan::model::log_prob_grad(model_, par_r, par_i, gradient, &rstan::io::rcout); stanExports_negBinomial_MPI.cc:23:0: required from here 23 | .method("grad_log_prob", &rstan::stan_fit ::grad_log_prob) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:167:5: required from 'struct boost::CopyConstructible<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:125:16: required from 'struct boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >' 125 | struct IncrementableIteratorConcept : CopyConstructible | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: [ skipping 14 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:31: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::CopyConstructible<__gnu_cxx::__normal_iterator > >]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: required from 'struct boost::Convertible' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::Convertible]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_concepts.hpp:114:7: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::Convertible]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::Convertible]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_concepts.hpp:114:7: required from 'struct boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::Convertible::~Convertible() [with X = boost::iterators::random_access_traversal_tag; Y = boost::iterators::incrementable_traversal_tag]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 208 | BOOST_CONCEPT_USAGE(Convertible) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:136:13: required from 'struct boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:233:5: required from 'struct boost::EqualityComparable<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::EqualityComparable<__gnu_cxx::__normal_iterator > >]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: required from 'struct boost::Convertible' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::Convertible]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:152:13: [ skipping 17 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::Convertible]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::Convertible]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:152:13: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_ > >)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:278:9: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::Convertible::~Convertible() [with X = boost::iterators::random_access_traversal_tag; Y = boost::iterators::single_pass_traversal_tag]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 208 | BOOST_CONCEPT_USAGE(Convertible) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:158:13: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_ > >)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:278:9: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:278:9: required from 'struct boost::SinglePassRangeConcept > > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::SinglePassRangeConcept > > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_ > > >)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/algorithm/equal.hpp:174:13: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::range_detail::SinglePassIteratorConcept::~SinglePassIteratorConcept() [with Iterator = __gnu_cxx::__normal_iterator >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:158:13: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 158 | BOOST_CONCEPT_USAGE(SinglePassIteratorConcept) | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:284:9: required from 'struct boost::SinglePassRangeConcept > > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::SinglePassRangeConcept > > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: required from 'struct boost::concepts::requirement_ > > >)>' 72 | struct requirement_ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/algorithm/equal.hpp:174:13: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:5: note: in a call to non-static member function 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::SinglePassRangeConcept > > >]' 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp: In instantiation of 'static void boost::concepts::requirement::failed() [with Model = boost::SinglePassRangeConcept > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/algorithm/equal.hpp:174:13: required from 'bool boost::range::equal(const SinglePassRange1&, const SinglePassRange2&) [with SinglePassRange1 = boost::iterator_range<__gnu_cxx::__normal_iterator > >; SinglePassRange2 = boost::iterator_range<__gnu_cxx::__normal_iterator > >]' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/iterator_range_core.hpp:644:32: required from 'bool boost::operator==(const iterator_range&, const iterator_range&) [with Iterator1T = __gnu_cxx::__normal_iterator >; Iterator2T = __gnu_cxx::__normal_iterator >]' 644 | return boost::equal( l, r ); | ~~~~~~~~~~~~^~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/find_iterator.hpp:359:0: required from 'bool boost::algorithm::split_iterator::equal(const boost::algorithm::split_iterator&) const [with IteratorT = __gnu_cxx::__normal_iterator >]' 359 | m_Match==Other.m_Match && /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:649:26: required from 'static bool boost::iterators::iterator_core_access::equal(const Facade1&, const Facade2&, mpl_::true_) [with Facade1 = boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >; Facade2 = boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >; mpl_::true_ = mpl_::bool_]' 649 | return f1.equal(f2); | ~~~~~~~~^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:981:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator==(const iterator_facade&, const iterator_facade&) [with Derived1 = boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >; V1 = const boost::iterator_range<__gnu_cxx::__normal_iterator > >; TC1 = forward_traversal_tag; Reference1 = const boost::iterator_range<__gnu_cxx::__normal_iterator > >&; Difference1 = long int; Derived2 = boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >; V2 = const boost::iterator_range<__gnu_cxx::__normal_iterator > >; TC2 = forward_traversal_tag; Reference2 = const boost::iterator_range<__gnu_cxx::__normal_iterator > >&; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_adaptor.hpp:305:29: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: warning: 'this' pointer is null [-Wnonnull] 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::SinglePassRangeConcept::~SinglePassRangeConcept() [with T = const boost::iterator_range<__gnu_cxx::__normal_iterator > >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:284:9: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 284 | BOOST_CONCEPT_USAGE(SinglePassRangeConcept) | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of 'void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_positive_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]': /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/check_positive_finite.hpp:24:20: required from 'void stan::math::check_positive_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]' 24 | elementwise_check([](double x) { return x > 0 && std::isfinite(x); }, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 25 | function, name, y, "positive finite"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/prob/neg_binomial_2_log_lpmf.hpp:47:24: required from 'stan::return_type_t stan::math::neg_binomial_2_log_lpmf(const T_n&, const T_log_location&, const T_precision&) [with bool propto = false; T_n = std::vector; T_log_location = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp&>(Eigen::Matrix&, const char*, const index_multi&)::::, Eigen::Matrix >, const Eigen::Matrix >; T_precision = Eigen::Matrix; stan::require_all_not_nonscalar_prim_or_rev_kernel_expression_t* = 0; stan::return_type_t = double]' 47 | check_positive_finite(function, "Precision parameter", phi_ref); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stanExports_negBinomial_MPI.h:571:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]' 571 | lp = (stan::math::neg_binomial_2_log_lpmf( 572 | stan::model::rvalue(counts, "counts", 573 | stan::model::index_min_max(1, 574 | stan::model::rvalue(symbol_end, "symbol_end", 575 | stan::model::index_uni((G_per_shard + 1))))), 576 | stan::math::add( 577 | stan::model::rvalue(exposure_rate, "exposure_rate", 578 | stan::model::index_multi( 579 | stan::model::rvalue(sample_idx, "sample_idx", 580 | stan::model::index_min_max(1, 581 | stan::model::rvalue(symbol_end, "symbol_end", 582 | stan::model::index_uni((G_per_shard + 1))))))), 583 | lambda_MPI), sigma_MPI_c) stanExports_negBinomial_MPI.h:242:0: required from 'Eigen::Matrix::type, typename stan::base_type::type, T2__>::type, -1, 1> model_negBinomial_MPI_namespace::lp_reduce_functor__::operator()(const T0__&, const T1__&, const std::vector&, const std::vector&, std::ostream*) const [with T0__ = Eigen::Matrix; T1__ = Eigen::Matrix; T2__ = double; stan::require_all_t, stan::is_vt_not_complex, stan::is_col_vector, stan::is_vt_not_complex, stan::is_stan_scalar >* = 0; typename boost::math::tools::promote_args::type, typename stan::base_type::type, T2__>::type = double; typename stan::base_type::type = double; typename stan::base_type::type = double; std::ostream = std::basic_ostream]' 242 | return lp_reduce(global_parameters, local_parameters, real_data, 243 | int_data, pstream__); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/functor/map_rect_reduce.hpp:47:15: required from 'stan::math::matrix_d stan::math::internal::map_rect_reduce::operator()(const stan::math::vector_d&, const stan::math::vector_d&, const std::vector&, const std::vector&, std::ostream*) const [with F = model_negBinomial_MPI_namespace::lp_reduce_functor__; stan::math::matrix_d = Eigen::Matrix; stan::math::vector_d = Eigen::Matrix; std::ostream = std::basic_ostream]' 47 | return F()(shared_params, job_specific_params, x_r, x_i, msgs).transpose(); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/rev/functor/map_rect_concurrent.hpp:41:0: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] stanExports_negBinomial_MPI.h:1246:0: required from 'stan::scalar_type_t model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob_impl(VecR&, VecI&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; VecR = std::vector; VecI = std::vector; stan::require_vector_like_t* = 0; stan::require_vector_like_vt* = 0; stan::scalar_type_t = double; std::ostream = std::basic_ostream]' 1246 | stan::math::map_rect<1, lp_reduce_functor__>( 1247 | global_parameters, 1248 | get_reference_parameters_MPI(n_shards, M, 1249 | G_per_shard, G_ind, lambda_log_param, sigma, 1250 | exposure_rate, pstream__), real_data, 1251 | counts_package, pstream__))); stanExports_negBinomial_MPI.h:1849:0: required from 'T_ model_negBinomial_MPI_namespace::model_negBinomial_MPI::log_prob(std::vector&, std::vector&, std::ostream*) const [with bool propto__ = false; bool jacobian__ = false; T_ = double; std::ostream = std::basic_ostream]' 1849 | return log_prob_impl(params_r, params_i, pstream); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/services/optimize/newton.hpp:56:0: required from 'int stan::services::optimize::newton(Model&, const stan::io::var_context&, unsigned int, unsigned int, double, int, bool, stan::callbacks::interrupt&, stan::callbacks::logger&, stan::callbacks::writer&, stan::callbacks::writer&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; bool jacobian = false]' 56 | lp = model.template log_prob(cont_vector, disc_vector, 57 | &message); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:502:0: required from 'int rstan::{anonymous}::command(rstan::stan_args&, Model&, Rcpp::List&, const std::vector&, const std::vector >&, RNG_t&) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; Rcpp::List = Rcpp::Vector<19>]' 502 | = stan::services::optimize::newton(model, *init_context_ptr, 503 | random_seed, id, init_radius, 504 | num_iterations, 505 | save_iterations, 506 | interrupt, logger, 507 | init_writer, sample_writer); /home/biocbuild/R/R-4.4.1/site-library/rstan/include/rstan/stan_fit.hpp:1215:0: required from 'SEXPREC* rstan::stan_fit::call_sampler(SEXP) [with Model = model_negBinomial_MPI_namespace::model_negBinomial_MPI; RNG_t = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >; SEXP = SEXPREC*]' 1215 | ret = command(args, model_, holder, names_oi_tidx_, 1216 | fnames_oi_, base_rng); stanExports_negBinomial_MPI.cc:15:0: required from here 15 | .method("call_sampler", &rstan::stan_fit ::call_sampler) /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'Eigen::EigenBase >::Index' {aka 'long int'} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::CopyConstructible<__gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:167:5: required from 'struct boost::CopyConstructible<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:125:16: required from 'struct boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >' 125 | struct IncrementableIteratorConcept : CopyConstructible | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::CopyConstructible::~CopyConstructible() [with TT = __gnu_cxx::__normal_iterator >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:167:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 167 | BOOST_CONCEPT_USAGE(CopyConstructible) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::Convertible]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: required from 'struct boost::Convertible' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::Convertible]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 19 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::Convertible::~Convertible() [with X = boost::iterators::random_access_traversal_tag; Y = boost::iterators::incrementable_traversal_tag]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 208 | BOOST_CONCEPT_USAGE(Convertible) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:136:13: required from 'struct boost::range_detail::IncrementableIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: [ skipping 14 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::range_detail::IncrementableIteratorConcept::~IncrementableIteratorConcept() [with Iterator = __gnu_cxx::__normal_iterator >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:136:13: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 136 | BOOST_CONCEPT_USAGE(IncrementableIteratorConcept) | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::EqualityComparable<__gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:233:5: required from 'struct boost::EqualityComparable<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:147:16: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 147 | struct SinglePassIteratorConcept | ^~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: [ skipping 14 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::EqualityComparable::~EqualityComparable() [with TT = __gnu_cxx::__normal_iterator >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:233:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 233 | BOOST_CONCEPT_USAGE(EqualityComparable) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::Convertible]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: required from 'struct boost::Convertible' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::Convertible]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::Convertible::~Convertible() [with X = boost::iterators::random_access_traversal_tag; Y = boost::iterators::single_pass_traversal_tag]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept_check.hpp:208:5: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 208 | BOOST_CONCEPT_USAGE(Convertible) { | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:158:13: required from 'struct boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::range_detail::SinglePassIteratorConcept<__gnu_cxx::__normal_iterator > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::range_detail::SinglePassIteratorConcept::~SinglePassIteratorConcept() [with Iterator = __gnu_cxx::__normal_iterator >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:158:13: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 158 | BOOST_CONCEPT_USAGE(SinglePassIteratorConcept) | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp: In instantiation of 'boost::concepts::usage_requirements::~usage_requirements() [with Model = boost::SinglePassRangeConcept > > >]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:50:47: required from 'static void boost::concepts::requirement::failed() [with Model = boost::concepts::usage_requirements > > > >]' 50 | static void failed() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:284:9: required from 'struct boost::SinglePassRangeConcept > > >' 92 | &::boost::concepts::requirement_::failed> \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:32:62: required by substitution of 'template boost::concepts::detail::yes boost::concepts::detail::has_constraints_(Model*, wrap_constraints*) [with Model = boost::SinglePassRangeConcept > > >]' 32 | inline yes has_constraints_(Model*, wrap_constraints* = 0); | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:42:5: required from 'const bool boost::concepts::not_satisfied > > > >::value' 44 | , value = sizeof( detail::has_constraints_((Model*)0) ) == sizeof(detail::yes) ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/has_constraints.hpp:45:51: required from 'struct boost::concepts::not_satisfied > > > >' 45 | typedef boost::integral_constant type; | ^~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/detail/general.hpp:72:8: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/iterator/iterator_facade.hpp:982:3: required from 'typename boost::iterators::detail::enable_if_interoperable::type>::type boost::iterators::operator!=(const iterator_facade&, const iterator_facade&) [with Derived1 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V1 = std::__cxx11::basic_string; TC1 = forward_traversal_tag; Reference1 = std::__cxx11::basic_string; Difference1 = long int; Derived2 = transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; V2 = std::__cxx11::basic_string; TC2 = forward_traversal_tag; Reference2 = std::__cxx11::basic_string; Difference2 = long int; typename detail::enable_if_interoperable::type>::type = bool; typename boost::mpl::apply2::type = bool]' 966 | return_prefix iterator_core_access::base_op( \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 967 | *static_cast(&lhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 968 | , *static_cast(&rhs) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 969 | , BOOST_ITERATOR_CONVERTIBLE(Derived2,Derived1) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 970 | ); \ | ~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:1673:21: required from 'void std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator, _InputIterator, std::input_iterator_tag) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' 1673 | for (; __first != __last; ++__first) | ~~~~~~~~^~~~~~~~~ /home/biocbuild/miniforge3/lib/gcc/aarch64-conda-linux-gnu/14.2.0/include/c++/bits/stl_vector.h:711:23: required from 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = boost::iterators::transform_iterator, __gnu_cxx::__normal_iterator > >, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator > >, boost::use_default, boost::use_default>; = void; _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >; allocator_type = std::allocator >]' 711 | _M_range_initialize(__first, __last, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 712 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/iter_find.hpp:186:0: required from 'SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&, RangeT&&, FinderT) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; FinderT = detail::token_finderF >]' 186 | SequenceSequenceT Tmp(itBegin, itEnd); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/algorithm/string/split.hpp:158:0: required from 'SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&&, PredicateT, token_compress_mode_type) [with SequenceSequenceT = std::vector >; RangeT = std::__cxx11::basic_string&; PredicateT = detail::is_any_ofF]' 158 | return ::boost::algorithm::iter_split( 159 | Result, 160 | Input, 161 | ::boost::algorithm::token_finder( Pred, eCompress ) ); /home/biocbuild/R/R-4.4.1/site-library/StanHeaders/include/src/stan/io/stan_csv_reader.hpp:19:0: required from here 19 | boost::split(parts, variable, boost::is_any_of(":")); /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:20:48: warning: 'this' pointer is null [-Wnonnull] 20 | ~usage_requirements() { ((Model*)0)->~Model(); } | ~~~~~~~~~~~~~~~~~~~^~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/concept/usage.hpp:37:7: note: in a call to non-static member function 'boost::SinglePassRangeConcept::~SinglePassRangeConcept() [with T = const boost::iterator_range<__gnu_cxx::__normal_iterator > >]' 37 | ~model() | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/range/concepts.hpp:284:9: note: in expansion of macro 'BOOST_CONCEPT_USAGE' 284 | BOOST_CONCEPT_USAGE(SinglePassRangeConcept) | ^~~~~~~~~~~~~~~~~~~ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/hypergeometric_pFq.hpp: In function 'typename boost::math::tools::promote_args::type boost::math::hypergeometric_pFq(const Seq&, const Seq&, const Real&, Real*, const Policy&) [with Seq = std::vector; Real = double; Policy = policies::policy]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/hypergeometric_pFq.hpp:61:44: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 61 | std::pair r = boost::math::detail::hypergeometric_pFq_checked_series_impl(aj, bj, value_type(z), pol, boost::math::detail::iteration_terminator(boost::math::policies::get_max_series_iterations()), scale); | ^ In file included from /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/special_functions/gamma.hpp:18: /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp: In function 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_a(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::upper_incomplete_gamma_fract; U = double]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:217:15: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 217 | value_type v = g(); | ^ /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp: In function 'typename boost::math::tools::detail::fraction_traits::result_type boost::math::tools::continued_fraction_a(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::upper_incomplete_gamma_fract; U = long double]': /home/biocbuild/R/R-4.4.1/site-library/BH/include/boost/math/tools/fraction.hpp:217:15: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o ppcseq.so RcppExports.o stanExports_negBinomial_MPI.o -L/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/lib/ -Wl,-rpath,/home/biocbuild/R/R-4.4.1/site-library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/home/biocbuild/R/R-4.4.1/lib -lR installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-ppcseq/00new/ppcseq/libs ** 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 ** 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 (ppcseq)