############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.1/bin/R CMD build --keep-empty-dirs --no-resave-data BGmix ### ############################################################################## ############################################################################## * checking for file ‘BGmix/DESCRIPTION’ ... OK * preparing ‘BGmix’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package ‘BGmix’ ... ** using staged installation checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for gcc option to accept ISO C99... none needed checking for cos in -lm... yes checking for an ANSI C-conforming const... yes checking for inline... inline configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I ../boostIncl -I/usr/local/include -fPIC -g -O2 -Wall -g -O2 -Wall -DUSING_R -c BGmix_main.cpp -o BGmix_main.o In file included from ../boostIncl/boost/config.hpp:57, from ../boostIncl/boost/random/linear_congruential.hpp:22, from ../boostIncl/boost/random.hpp:36, from rand.hh:32, from updates_BGmix.h:1, from BGmix_main.cpp:25: ../boostIncl/boost/random/detail/const_mod.hpp: In static member function ‘static IntType boost::random::const_mod::invert_euclidian(IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_148’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/detail/const_mod.hpp:148:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 148 | BOOST_STATIC_ASSERT(m > 0); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_152’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/detail/const_mod.hpp:152:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 152 | BOOST_STATIC_ASSERT(boost::integer_traits::is_signed); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/linear_congruential.hpp: In constructor ‘boost::random::linear_congruential::linear_congruential(IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_63’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/linear_congruential.hpp:63:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 63 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/inversive_congruential.hpp: In constructor ‘boost::random::inversive_congruential::inversive_congruential(IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_50’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/inversive_congruential.hpp:50:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 50 | BOOST_STATIC_ASSERT(b >= 0); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_51’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/inversive_congruential.hpp:51:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 51 | BOOST_STATIC_ASSERT(p > 1); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_52’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/inversive_congruential.hpp:52:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 52 | BOOST_STATIC_ASSERT(a >= 1); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/shuffle_output.hpp: In member function ‘void boost::random::shuffle_output::init()’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_124’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/shuffle_output.hpp:124:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 124 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/mersenne_twister.hpp: In member function ‘void boost::random::mersenne_twister::seed(Generator&)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_99’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/mersenne_twister.hpp:99:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 99 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_signed); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/subtract_with_carry.hpp: In constructor ‘boost::random::subtract_with_carry::subtract_with_carry()’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_83’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/subtract_with_carry.hpp:83:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 83 | BOOST_STATIC_ASSERT(std::numeric_limits::is_signed); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_84’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/subtract_with_carry.hpp:84:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 84 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift::linear_feedback_shift(UIntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_55’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp:55:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 55 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_56’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp:56:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 56 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_signed); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift::linear_feedback_shift(It&, It)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_69’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 69 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_70’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/linear_feedback_shift.hpp:70:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 70 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_signed); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/xor_combine.hpp: In member function ‘boost::random::xor_combine::result_type boost::random::xor_combine::operator()()’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_67’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/xor_combine.hpp:67:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 67 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_68’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/xor_combine.hpp:68:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 68 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_69’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/xor_combine.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 69 | BOOST_STATIC_ASSERT(std::numeric_limits::digits >= std::numeric_limits::digits); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::detail::uniform_smallint_float::uniform_smallint_float(boost::detail::uniform_smallint_float::base_type&, IntType, IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_121’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/uniform_smallint.hpp:121:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 121 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_122’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/uniform_smallint.hpp:122:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 122 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::uniform_smallint::uniform_smallint(IntType, IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_170’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/uniform_smallint.hpp:170:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 170 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/uniform_int.hpp: In constructor ‘boost::uniform_int::uniform_int(IntType, IntType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_47’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/uniform_int.hpp:47:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 47 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/random_number_generator.hpp: In constructor ‘boost::random_number_generator::random_number_generator(boost::random_number_generator::base_type&)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_38’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/random_number_generator.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 38 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/uniform_real.hpp: In constructor ‘boost::uniform_real::uniform_real(RealType, RealType)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_41’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/uniform_real.hpp:41:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 41 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/random/poisson_distribution.hpp: In constructor ‘boost::poisson_distribution::poisson_distribution(const RealType&)’: ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_38’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/poisson_distribution.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 38 | BOOST_STATIC_ASSERT(std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_39’ locally defined but not used [-Wunused-local-typedefs] 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’ 523 | #define BOOST_DO_JOIN2( X, Y ) X##Y | ^ ../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’ 521 | #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y ) | ^~~~~~~~~~~~~ ../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’ 105 | BOOST_JOIN(boost_static_assert_typedef_, __LINE__) | ^~~~~~~~~~ ../boostIncl/boost/random/poisson_distribution.hpp:39:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’ 39 | BOOST_STATIC_ASSERT(!std::numeric_limits::is_integer); | ^~~~~~~~~~~~~~~~~~~ In file included from updates_BGmix.h:1, from BGmix_main.cpp:25: rand.hh: In member function ‘RealType Rand::Normal()’: rand.hh:368:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 368 | if(u0<.5) return y; return -y; | ^~ rand.hh:368:27: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 368 | if(u0<.5) return y; return -y; | ^~~~~~ rand.hh:375:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 375 | if(u0<.5) return y; return -y; | ^~ rand.hh:375:27: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 375 | if(u0<.5) return y; return -y; | ^~~~~~ rand.hh:382:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 382 | if(u0<.5) return y; return -y; | ^~ rand.hh:382:27: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 382 | if(u0<.5) return y; return -y; | ^~~~~~ rand.hh:389:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 389 | if(u0<.5) return y; return -y; | ^~ rand.hh:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 389 | if(u0<.5) return y; return -y; | ^~~~~~ BGmix_main.cpp: In function ‘void BGmix(int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double*, double*, double*, int*, int&, double*, int*, char**, char**, char**, char**, char**)’: BGmix_main.cpp:145:1: error: reference to ‘beta’ is ambiguous 145 | beta = new double*[ngenes]; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:146:29: error: reference to ‘beta’ is ambiguous 146 | for(int i=0; i typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:165:17: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses] 165 | if(neffects==2 & nconds==2){ | ~~~~~~~~^~~ BGmix_main.cpp:166:8: error: reference to ‘beta’ is ambiguous 166 | beta[i][0] = xx[1][1]*ybar[i][0] - xx[1][0]*ybar[i][1]; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:167:8: error: reference to ‘beta’ is ambiguous 167 | beta[i][1] = xx[0][0]*ybar[i][1] - xx[0][1]*ybar[i][0]; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:169:11: error: reference to ‘beta’ is ambiguous 169 | else beta[i][j] = beta_init; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:178:12: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses] 178 | if(jstar!=-1 & ncomps==3){ | ~~~~~^~~~ BGmix_main.cpp:179:9: error: reference to ‘beta’ is ambiguous 179 | if(beta[i][jstar]<0.01 & beta[i][jstar]>-0.01) zg[i]=1; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:179:31: error: reference to ‘beta’ is ambiguous 179 | if(beta[i][jstar]<0.01 & beta[i][jstar]>-0.01) zg[i]=1; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:180:14: error: reference to ‘beta’ is ambiguous 180 | else if(beta[i][jstar]>0) zg[i]=2; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:507:15: error: reference to ‘beta’ is ambiguous 507 | update_beta0(beta, tau, gamma1, xx, indtau, ybar, ydata, like_choice, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:512:38: error: reference to ‘beta’ is ambiguous 512 | if(move_choice_cut==1) update_tau(beta, tau, gamma1, xx, indtau, ybar, ss, ydata, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:522:23: error: reference to ‘beta’ is ambiguous 522 | update_tau_logNorm(beta, tau, gamma1, xx, indtau, ybar, ss, ydata, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:529:34: error: reference to ‘beta’ is ambiguous 529 | if(like_choice==2) update_gamma(beta, tau, gamma1, xx, indtau, ydata, df, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:536:25: error: reference to ‘beta’ is ambiguous 536 | eta_up, eta_down, beta, tau, gamma1, xx, indtau, ybar, ydata, like_choice, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:541:32: error: reference to ‘beta’ is ambiguous 541 | update_z_beta1_joint2(zg, beta, nalloc, n_acc, n_try, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:546:26: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 546 | else if(move_choice_bz==3 | move_choice_bz==4){ | ~~~~~~~~~~~~~~^~~ BGmix_main.cpp:547:32: error: reference to ‘beta’ is ambiguous 547 | update_z_beta1_joint3(zg, beta, nalloc, n_acc, n_try, wtc, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:551:16: error: reference to ‘beta’ is ambiguous 551 | zg, beta, nalloc, ngenes, nconds, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:553:30: error: reference to ‘beta’ is ambiguous 553 | lam1, lam2, nlam, zg, beta, nalloc, ngenes, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:556:32: error: reference to ‘beta’ is ambiguous 556 | update_z_beta1_joint4(zg, beta, nalloc, n_acc, n_try, wtc, tau_eps, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:560:16: error: reference to ‘beta’ is ambiguous 560 | zg, beta, nalloc, ngenes, nconds, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:562:30: error: reference to ‘beta’ is ambiguous 562 | lam1, lam2, nlam, zg, beta, nalloc, ngenes, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:583:15: error: reference to ‘beta’ is ambiguous 583 | update_beta0(beta, tau, gamma1, xx, indtau, ybar, ydata, like_choice, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:588:38: error: reference to ‘beta’ is ambiguous 588 | if(move_choice_cut==1) update_tau(beta, tau, gamma1, xx, indtau, ybar, ss, ydata, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:597:23: error: reference to ‘beta’ is ambiguous 597 | update_tau_logNorm(beta, tau, gamma1, xx, indtau, ybar, ss, ydata, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:605:34: error: reference to ‘beta’ is ambiguous 605 | if(like_choice==2) update_gamma(beta, tau, gamma1, xx, indtau, ydata, df, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:611:25: error: reference to ‘beta’ is ambiguous 611 | eta_up, eta_down, beta, tau, gamma1, xx, indtau, ybar, ydata, like_choice, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:616:32: error: reference to ‘beta’ is ambiguous 616 | update_z_beta1_joint2(zg, beta, nalloc, n_acc, n_try, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:621:26: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 621 | else if(move_choice_bz==3 | move_choice_bz==4){ | ~~~~~~~~~~~~~~^~~ BGmix_main.cpp:622:32: error: reference to ‘beta’ is ambiguous 622 | update_z_beta1_joint3(zg, beta, nalloc, n_acc, n_try, wtc, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:626:16: error: reference to ‘beta’ is ambiguous 626 | zg, beta, nalloc, ngenes, nconds, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:628:30: error: reference to ‘beta’ is ambiguous 628 | lam1, lam2, nlam, zg, beta, nalloc, ngenes, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:631:32: error: reference to ‘beta’ is ambiguous 631 | update_z_beta1_joint4(zg, beta, nalloc, n_acc, n_try, wtc, tau_eps, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:635:16: error: reference to ‘beta’ is ambiguous 635 | zg, beta, nalloc, ngenes, nconds, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:637:30: error: reference to ‘beta’ is ambiguous 637 | lam1, lam2, nlam, zg, beta, nalloc, ngenes, jstar, rand); | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:647:43: error: reference to ‘beta’ is ambiguous 647 | ybar, ss, tau, gamma1, aa, bb, zg, beta, xx, indtau, wtc, tau_eps, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:653:54: error: reference to ‘beta’ is ambiguous 653 | ybar, ss, tau, gamma1, df, aa, bb, zg, beta, xx, indtau, wtc, tau_eps, eta_up, eta_down, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:656:40: error: reference to ‘beta’ is ambiguous 656 | deviance_calc(deviance1, deviance2, beta, tau, gamma1, xx, indtau, ybar, ss, ydata, | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:670:23: error: reference to ‘beta’ is ambiguous 670 | mean_beta[i][j] += beta[i][j]; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:705:22: error: reference to ‘beta’ is ambiguous 705 | beta_file << beta[i][j] << " "; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp: In function ‘void freeBGmixMemory(int&, int&)’: BGmix_main.cpp:967:41: error: reference to ‘beta’ is ambiguous 967 | for(int i=0; i typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp:968:13: error: reference to ‘beta’ is ambiguous 968 | delete [] beta; | ^~~~ In file included from /usr/include/c++/10.3.1/cmath:1927, from /usr/include/c++/10.3.1/valarray:37, from rand.hh:24, from updates_BGmix.h:1, from BGmix_main.cpp:25: /usr/include/c++/10.3.1/bits/specfun.h:343:5: note: candidates are: ‘template typename __gnu_cxx::__promote_2<_Tp, _Up>::__type std::beta(_Tpa, _Tpb)’ 343 | beta(_Tpa __a, _Tpb __b) | ^~~~ BGmix_main.cpp:76:40: note: ‘double** beta’ 76 | static double **ybar, **ss, **ydata, **beta, **tau, **gamma1, | ^~~~ BGmix_main.cpp: At global scope: BGmix_main.cpp:76:40: warning: ‘beta’ defined but not used [-Wunused-variable] make: *** [Makevars:9: BGmix_main.o] Error 1 ERROR: compilation failed for package ‘BGmix’ * removing ‘/home/biocbuild/tmp/RtmpbIv06J/Rinst29274b4f3c64c9/BGmix’ ----------------------------------- ERROR: package installation failed