Multiple platform build/check report for BioC 3.11 - BUILD BIN report for bgx on celaya2

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### Running command:
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###   rm -rf bgx.buildbin-libdir && mkdir bgx.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bgx_1.53.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R bgx.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=bgx.buildbin-libdir bgx_1.53.0.tar.gz'
>>>>>>> 

* installing *source* package ‘bgx’ ...
** using staged installation
checking for gcc... clang
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 clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking for C compiler vendor... gnu
checking whether C compiler accepts -ffast-math... yes
checking whether C compiler accepts -O3... yes
checking build system type... i386-apple-darwin15.6.0
checking host system type... i386-apple-darwin15.6.0
checking for gcc architecture flag... 
checking for x86 cpuid 0 output... d:756e6547:6c65746e:49656e69
checking for x86 cpuid 1 output... 306e4:11170800:ffba220b:1f8bfbff
checking whether C compiler accepts -march=pentiumpro... no
checking whether C compiler accepts -mcpu=pentiumpro... yes
checking for gcc architecture flag... -mcpu=pentiumpro
checking for clang option to accept ISO C99... none needed
checking for main in -lm... yes
Untarring Boost header files...
checking for an ANSI C-conforming const... yes
checking for inline... inline
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -ffast-math -O3 -DUSING_R -c bgx.cc -o bgx.o
In file included from bgx.cc:41:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp.h:27:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/RcppCommon.h:128:
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp/exceptions.h:109:53: warning: all paths through this function will call itself [-Winfinite-recursion]
    inline void warning(const std::string& message) {        // #nocov start
                                                    ^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:36:
In file included from ../boostIncl/boost/random/linear_congruential.hpp:25:
../boostIncl/boost/random/detail/const_mod.hpp:152:5: warning: unused typedef 'boost_static_assert_typedef_152' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(boost::integer_traits<IntType>::is_signed);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:417:1: note: expanded from here
boost_static_assert_typedef_152
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:36:
In file included from ../boostIncl/boost/random/linear_congruential.hpp:25:
../boostIncl/boost/random/detail/const_mod.hpp:148:5: warning: unused typedef 'boost_static_assert_typedef_148' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(m > 0);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:415:1: note: expanded from here
boost_static_assert_typedef_148
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:36:
../boostIncl/boost/random/linear_congruential.hpp:63:5: warning: unused typedef 'boost_static_assert_typedef_63' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:419:1: note: expanded from here
boost_static_assert_typedef_63
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:38:
../boostIncl/boost/random/inversive_congruential.hpp:52:5: warning: unused typedef 'boost_static_assert_typedef_52' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(a >= 1);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:425:1: note: expanded from here
boost_static_assert_typedef_52
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:38:
../boostIncl/boost/random/inversive_congruential.hpp:51:5: warning: unused typedef 'boost_static_assert_typedef_51' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(p > 1);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:423:1: note: expanded from here
boost_static_assert_typedef_51
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:38:
../boostIncl/boost/random/inversive_congruential.hpp:50:5: warning: unused typedef 'boost_static_assert_typedef_50' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(b >= 0);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:421:1: note: expanded from here
boost_static_assert_typedef_50
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:39:
../boostIncl/boost/random/shuffle_output.hpp:124:5: warning: unused typedef 'boost_static_assert_typedef_124' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:427:1: note: expanded from here
boost_static_assert_typedef_124
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:40:
../boostIncl/boost/random/mersenne_twister.hpp:99:5: warning: unused typedef 'boost_static_assert_typedef_99' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<result_type>::is_signed);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:429:1: note: expanded from here
boost_static_assert_typedef_99
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:42:
In file included from ../boostIncl/boost/random/ranlux.hpp:20:
../boostIncl/boost/random/subtract_with_carry.hpp:84:5: warning: unused typedef 'boost_static_assert_typedef_84' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:435:1: note: expanded from here
boost_static_assert_typedef_84
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:42:
In file included from ../boostIncl/boost/random/ranlux.hpp:20:
../boostIncl/boost/random/subtract_with_carry.hpp:83:5: warning: unused typedef 'boost_static_assert_typedef_83' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_signed);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:433:1: note: expanded from here
boost_static_assert_typedef_83
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:43:
../boostIncl/boost/random/linear_feedback_shift.hpp:56:5: warning: unused typedef 'boost_static_assert_typedef_56' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:443:1: note: expanded from here
boost_static_assert_typedef_56
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:43:
../boostIncl/boost/random/linear_feedback_shift.hpp:55:5: warning: unused typedef 'boost_static_assert_typedef_55' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:441:1: note: expanded from here
boost_static_assert_typedef_55
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:43:
../boostIncl/boost/random/linear_feedback_shift.hpp:69:5: warning: unused typedef 'boost_static_assert_typedef_69' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:445:1: note: expanded from here
boost_static_assert_typedef_69
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:43:
../boostIncl/boost/random/linear_feedback_shift.hpp:70:5: warning: unused typedef 'boost_static_assert_typedef_70' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:447:1: note: expanded from here
boost_static_assert_typedef_70
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:44:
../boostIncl/boost/random/xor_combine.hpp:68:5: warning: unused typedef 'boost_static_assert_typedef_68' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<typename base2_type::result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:451:1: note: expanded from here
boost_static_assert_typedef_68
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:44:
../boostIncl/boost/random/xor_combine.hpp:69:5: warning: unused typedef 'boost_static_assert_typedef_69' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::digits >= std::numeric_limits<typename base2_type::result_type>::digits);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:453:1: note: expanded from here
boost_static_assert_typedef_69
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:44:
../boostIncl/boost/random/xor_combine.hpp:67:5: warning: unused typedef 'boost_static_assert_typedef_67' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:449:1: note: expanded from here
boost_static_assert_typedef_67
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:53:
In file included from ../boostIncl/boost/random/random_number_generator.hpp:22:
In file included from ../boostIncl/boost/random/uniform_int.hpp:26:
../boostIncl/boost/random/uniform_smallint.hpp:122:5: warning: unused typedef 'boost_static_assert_typedef_122' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<typename base_type::result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:457:1: note: expanded from here
boost_static_assert_typedef_122
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:53:
In file included from ../boostIncl/boost/random/random_number_generator.hpp:22:
In file included from ../boostIncl/boost/random/uniform_int.hpp:26:
../boostIncl/boost/random/uniform_smallint.hpp:121:5: warning: unused typedef 'boost_static_assert_typedef_121' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:455:1: note: expanded from here
boost_static_assert_typedef_121
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:53:
In file included from ../boostIncl/boost/random/random_number_generator.hpp:22:
In file included from ../boostIncl/boost/random/uniform_int.hpp:26:
../boostIncl/boost/random/uniform_smallint.hpp:170:5: warning: unused typedef 'boost_static_assert_typedef_170' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:459:1: note: expanded from here
boost_static_assert_typedef_170
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:53:
In file included from ../boostIncl/boost/random/random_number_generator.hpp:22:
../boostIncl/boost/random/uniform_int.hpp:47:5: warning: unused typedef 'boost_static_assert_typedef_47' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:461:1: note: expanded from here
boost_static_assert_typedef_47
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:53:
../boostIncl/boost/random/random_number_generator.hpp:38:5: warning: unused typedef 'boost_static_assert_typedef_38' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:463:1: note: expanded from here
boost_static_assert_typedef_38
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:59:
../boostIncl/boost/random/uniform_real.hpp:41:5: warning: unused typedef 'boost_static_assert_typedef_41' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:465:1: note: expanded from here
boost_static_assert_typedef_41
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:67:
../boostIncl/boost/random/poisson_distribution.hpp:39:5: warning: unused typedef 'boost_static_assert_typedef_39' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:10:1: note: expanded from here
boost_static_assert_typedef_39
^
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:67:
../boostIncl/boost/random/poisson_distribution.hpp:38:5: warning: unused typedef 'boost_static_assert_typedef_38' [-Wunused-local-typedef]
    BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
    ^
../boostIncl/boost/static_assert.hpp:105:10: note: expanded from macro 'BOOST_STATIC_ASSERT'
         BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
         ^
../boostIncl/boost/config/suffix.hpp:521:28: note: expanded from macro 'BOOST_JOIN'
#define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                           ^
../boostIncl/boost/config/suffix.hpp:522:31: note: expanded from macro 'BOOST_DO_JOIN'
#define BOOST_DO_JOIN( X, Y ) BOOST_DO_JOIN2(X,Y)
                              ^
../boostIncl/boost/config/suffix.hpp:523:32: note: expanded from macro 'BOOST_DO_JOIN2'
#define BOOST_DO_JOIN2( X, Y ) X##Y
                               ^
<scratch space>:8:1: note: expanded from here
boost_static_assert_typedef_38
^
In file included from bgx.cc:36:
./bgx_updates.hh:47:8: warning: private field 'categories' is not used [-Wunused-private-field]
  int* categories;
       ^
./bgx_updates.hh:310:8: warning: private field 'categories' is not used [-Wunused-private-field]
  int *categories;
       ^
./bgx_updates.hh:311:7: warning: private field 'numberCategories' is not used [-Wunused-private-field]
  int numberCategories;
      ^
29 warnings generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -ffast-math -O3 -DUSING_R -c bgx_frontend.cc -o bgx_frontend.o
In file included from bgx_frontend.cc:33:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp.h:27:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/RcppCommon.h:128:
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp/exceptions.h:109:53: warning: all paths through this function will call itself [-Winfinite-recursion]
    inline void warning(const std::string& message) {        // #nocov start
                                                    ^
1 warning generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -g -O2 -mcpu=pentiumpro  -ffast-math -O3 -c qnorm.c -o qnorm.o
clang-8: warning: argument unused during compilation: '-mcpu=pentiumpro' [-Wunused-command-line-argument]
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -ffast-math -O3 -DUSING_R -c rundir.cc -o rundir.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -ffast-math -O3 -DUSING_R -c sokal.cc -o sokal.o
In file included from sokal.cc:30:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp.h:27:
In file included from /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/RcppCommon.h:128:
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include/Rcpp/exceptions.h:109:53: warning: all paths through this function will call itself [-Winfinite-recursion]
    inline void warning(const std::string& message) {        // #nocov start
                                                    ^
1 warning generated.
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o bgx.so bgx.o bgx_frontend.o qnorm.o rundir.o sokal.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
rm -r ../boostIncl
installing to /Users/biocbuild/bbs-3.11-bioc/meat/bgx.buildbin-libdir/00LOCK-bgx/00new/bgx/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (bgx)


>>>>>>> 
>>>>>>> FIXING LINKS FOR bgx.buildbin-libdir/bgx/libs//bgx.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgcc_s.1.dylib" "bgx.buildbin-libdir/bgx/libs//bgx.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "bgx.buildbin-libdir/bgx/libs//bgx.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.5.2.dylib" "bgx.buildbin-libdir/bgx/libs//bgx.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "bgx.buildbin-libdir/bgx/libs//bgx.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "bgx.buildbin-libdir/bgx/libs//bgx.so"
BUILD BIN report for bgx on celaya2

Summary

Command output
