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BioC 3.5: CHECK report for BGmix on malbec2

This page was generated on 2017-08-16 13:13:01 -0400 (Wed, 16 Aug 2017).

Package 103/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BGmix 1.36.0
Alex Lewin
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/BGmix
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 ...NOT SUPPORTED...NOT SUPPORTED...NOT SUPPORTED...
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: BGmix
Version: 1.36.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings BGmix_1.36.0.tar.gz
StartedAt: 2017-08-15 21:25:05 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 21:26:13 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 68.0 seconds
RetCode: 0
Status:  OK 
CheckDir: BGmix.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings BGmix_1.36.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/BGmix.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BGmix/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BGmix’ version ‘1.36.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BGmix’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
EstimatePi0: no visible global function definition for ‘median’
EstimatePi0: no visible global function definition for ‘abline’
FDRplotTailPP: no visible global function definition for ‘plot’
SimulateFromNull: no visible global function definition for ‘rt’
SimulateFromNull: no visible global function definition for ‘rgamma’
SimulateFromNull: no visible global function definition for ‘pnorm’
TailPP: no visible global function definition for ‘par’
TailPPCalculate: no visible global function definition for ‘qnorm’
histTailPP: no visible global function definition for ‘hist’
histTailPP: no visible global function definition for ‘lines’
histTailPP: no visible global function definition for ‘density’
plotBasic: no visible global function definition for ‘par’
plotBasic: no visible global function definition for ‘plot’
plotCompare: no visible global function definition for ‘plot.default’
plotCompare: no visible global function definition for ‘abline’
plotFDR: no visible global function definition for ‘plot’
plotFDR: no visible global function definition for ‘abline’
plotFDR: no visible global function definition for ‘legend’
plotMixDensity: no visible global function definition for ‘par’
plotMixDensity: no visible global function definition for ‘hist’
plotMixDensity: no visible global function definition for ‘lines’
plotMixDensity: no visible global function definition for ‘density’
plotPredChecks: no visible global function definition for ‘hist’
plotPredChecks: no visible global function definition for ‘plot’
plotPredChecks: no visible global function definition for ‘abline’
plotTrace: no visible global function definition for ‘par’
plotTrace: no visible global function definition for ‘plot’
plotTrace: no visible global function definition for ‘dev.cur’
plotTrace: no visible global function definition for ‘X11’
Undefined global functions or variables:
  X11 abline density dev.cur hist legend lines median par plot
  plot.default pnorm qnorm rgamma rt
Consider adding
  importFrom("grDevices", "X11", "dev.cur")
  importFrom("graphics", "abline", "hist", "legend", "lines", "par",
             "plot", "plot.default")
  importFrom("stats", "density", "median", "pnorm", "qnorm", "rgamma",
             "rt")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... NOTE
Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
Installation with --no-configure' is unlikely to work.  If you intended
‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
otherwise remove it.  If ‘configure’ created ‘src/Makevars’, you need a
‘cleanup’ script.
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File ‘BGmix/libs/BGmix.so’:
  Found ‘_ZSt4cerr’, possibly from ‘std::cerr’ (C++)
    Object: ‘updates_BGmix.o’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
             user system elapsed
FDRforTailPP 6.30  1.792   8.108
BGmix        5.52  0.048   5.573
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 5 NOTEs
See
  ‘/home/biocbuild/bbs-3.5-bioc/meat/BGmix.Rcheck/00check.log’
for details.

BGmix.Rcheck/00install.out:

* installing *source* package ‘BGmix’ ...
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
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
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I ../boostIncl  -I/usr/local/include   -fpic  -g -O2  -Wall -DUSING_R -c BGmix_main.cpp -o BGmix_main.o
In file included from ../boostIncl/boost/config.hpp:57:0,
                 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<IntType, m>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/detail/const_mod.hpp:148:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/detail/const_mod.hpp:152:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(boost::integer_traits<IntType>::is_signed);
     ^
../boostIncl/boost/random/linear_congruential.hpp: In constructor ‘boost::random::linear_congruential<IntType, a, c, m, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_congruential.hpp:63:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/inversive_congruential.hpp: In constructor ‘boost::random::inversive_congruential<IntType, a, b, p, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:50:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:51:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:52:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(a >= 1);
     ^
../boostIncl/boost/random/shuffle_output.hpp: In member function ‘void boost::random::shuffle_output<UniformRandomNumberGenerator, k, val>::init()’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_124’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/shuffle_output.hpp:124:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/mersenne_twister.hpp: In member function ‘void boost::random::mersenne_twister<UIntType, w, n, m, r, a, u, s, b, t, c, l, val>::seed(Generator&)’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_99’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/mersenne_twister.hpp:99:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<result_type>::is_signed);
     ^
../boostIncl/boost/random/subtract_with_carry.hpp: In constructor ‘boost::random::subtract_with_carry<IntType, m, s, r, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/subtract_with_carry.hpp:83:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_signed);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_84’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/subtract_with_carry.hpp:84:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift<UIntType, w, k, q, s, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:55:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_56’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:56:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
     ^
../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift<UIntType, w, k, q, s, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_70’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:70:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
     ^
../boostIncl/boost/random/xor_combine.hpp: In member function ‘boost::random::xor_combine<URNG1, s1, URNG2, s2, val>::result_type boost::random::xor_combine<URNG1, s1, URNG2, s2, val>::operator()()’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_67’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:67:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_68’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:68:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base2_type::result_type>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_69’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::digits >= std::numeric_limits<typename base2_type::result_type>::digits);
     ^
../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::detail::uniform_smallint_float<UniformRandomNumberGenerator, IntType>::uniform_smallint_float(boost::detail::uniform_smallint_float<UniformRandomNumberGenerator, IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:121:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_122’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:122:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<typename base_type::result_type>::is_integer);
     ^
../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::uniform_smallint<IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:170:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/uniform_int.hpp: In constructor ‘boost::uniform_int<IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_int.hpp:47:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/random_number_generator.hpp: In constructor ‘boost::random_number_generator<UniformRandomNumberGenerator, IntType>::random_number_generator(boost::random_number_generator<UniformRandomNumberGenerator, IntType>::base_type&)’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_38’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/random_number_generator.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/uniform_real.hpp: In constructor ‘boost::uniform_real<RealType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_real.hpp:41:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
     ^
../boostIncl/boost/random/poisson_distribution.hpp: In constructor ‘boost::poisson_distribution<IntType, RealType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/poisson_distribution.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_39’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/poisson_distribution.hpp:39:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
     ^
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:165:17: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses]
      if(neffects==2 & nconds==2){
                 ^
BGmix_main.cpp:178:12: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses]
    if(jstar!=-1 & ncomps==3){
            ^
BGmix_main.cpp:179:23: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses]
      if(beta[i][jstar]<0.01 & beta[i][jstar]>-0.01) zg[i]=1;
                       ^
BGmix_main.cpp:546:26: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
    else if(move_choice_bz==3 | move_choice_bz==4){
                          ^
BGmix_main.cpp:621:26: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
    else if(move_choice_bz==3 | move_choice_bz==4){
                          ^
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I ../boostIncl  -I/usr/local/include   -fpic  -g -O2  -Wall -DUSING_R -c rundir.cpp -o rundir.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I ../boostIncl  -I/usr/local/include   -fpic  -g -O2  -Wall -DUSING_R -c updates_BGmix.cpp -o updates_BGmix.o
In file included from ../boostIncl/boost/config.hpp:57:0,
                 from ../boostIncl/boost/random/linear_congruential.hpp:22,
                 from ../boostIncl/boost/random.hpp:36,
                 from rand.hh:32,
                 from updates_BGmix.h:1,
                 from updates_BGmix.cpp:3:
../boostIncl/boost/random/detail/const_mod.hpp: In static member function ‘static IntType boost::random::const_mod<IntType, m>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/detail/const_mod.hpp:148:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/detail/const_mod.hpp:152:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(boost::integer_traits<IntType>::is_signed);
     ^
../boostIncl/boost/random/linear_congruential.hpp: In constructor ‘boost::random::linear_congruential<IntType, a, c, m, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_congruential.hpp:63:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/inversive_congruential.hpp: In constructor ‘boost::random::inversive_congruential<IntType, a, b, p, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:50:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:51:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/inversive_congruential.hpp:52:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(a >= 1);
     ^
../boostIncl/boost/random/shuffle_output.hpp: In member function ‘void boost::random::shuffle_output<UniformRandomNumberGenerator, k, val>::init()’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_124’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/shuffle_output.hpp:124:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/mersenne_twister.hpp: In member function ‘void boost::random::mersenne_twister<UIntType, w, n, m, r, a, u, s, b, t, c, l, val>::seed(Generator&)’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_99’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/mersenne_twister.hpp:99:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<result_type>::is_signed);
     ^
../boostIncl/boost/random/subtract_with_carry.hpp: In constructor ‘boost::random::subtract_with_carry<IntType, m, s, r, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/subtract_with_carry.hpp:83:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_signed);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_84’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/subtract_with_carry.hpp:84:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift<UIntType, w, k, q, s, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:55:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_56’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:56:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
     ^
../boostIncl/boost/random/linear_feedback_shift.hpp: In constructor ‘boost::random::linear_feedback_shift<UIntType, w, k, q, s, val>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<UIntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_70’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/linear_feedback_shift.hpp:70:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<UIntType>::is_signed);
     ^
../boostIncl/boost/random/xor_combine.hpp: In member function ‘boost::random::xor_combine<URNG1, s1, URNG2, s2, val>::result_type boost::random::xor_combine<URNG1, s1, URNG2, s2, val>::operator()()’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_67’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:67:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_68’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:68:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base2_type::result_type>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_69’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/xor_combine.hpp:69:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<typename base1_type::result_type>::digits >= std::numeric_limits<typename base2_type::result_type>::digits);
     ^
../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::detail::uniform_smallint_float<UniformRandomNumberGenerator, IntType>::uniform_smallint_float(boost::detail::uniform_smallint_float<UniformRandomNumberGenerator, IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:121:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_122’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:122:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<typename base_type::result_type>::is_integer);
     ^
../boostIncl/boost/random/uniform_smallint.hpp: In constructor ‘boost::uniform_smallint<IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_smallint.hpp:170:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/uniform_int.hpp: In constructor ‘boost::uniform_int<IntType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_int.hpp:47:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/random/random_number_generator.hpp: In constructor ‘boost::random_number_generator<UniformRandomNumberGenerator, IntType>::random_number_generator(boost::random_number_generator<UniformRandomNumberGenerator, IntType>::base_type&)’:
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_38’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/random_number_generator.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<result_type>::is_integer);
     ^
../boostIncl/boost/random/uniform_real.hpp: In constructor ‘boost::uniform_real<RealType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/uniform_real.hpp:41:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
     ^
../boostIncl/boost/random/poisson_distribution.hpp: In constructor ‘boost::poisson_distribution<IntType, RealType>::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]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/poisson_distribution.hpp:38:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(std::numeric_limits<IntType>::is_integer);
     ^
../boostIncl/boost/static_assert.hpp:105:21: warning: typedef ‘boost_static_assert_typedef_39’ locally defined but not used [-Wunused-local-typedefs]
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
                     ^
../boostIncl/boost/config/suffix.hpp:523:32: note: in definition of macro ‘BOOST_DO_JOIN2’
 #define BOOST_DO_JOIN2( X, Y ) X##Y
                                ^
../boostIncl/boost/config/suffix.hpp:521:28: note: in expansion of macro ‘BOOST_DO_JOIN’
 #define BOOST_JOIN( X, Y ) BOOST_DO_JOIN( X, Y )
                            ^
../boostIncl/boost/static_assert.hpp:105:10: note: in expansion of macro ‘BOOST_JOIN’
          BOOST_JOIN(boost_static_assert_typedef_, __LINE__)
          ^
../boostIncl/boost/random/poisson_distribution.hpp:39:5: note: in expansion of macro ‘BOOST_STATIC_ASSERT’
     BOOST_STATIC_ASSERT(!std::numeric_limits<RealType>::is_integer);
     ^
updates_BGmix.cpp: In function ‘void update_z_beta1_joint2(int*, double**, int*, int&, int&, double*, double&, double&, double**, double**, double**, int*, double**, double**, int&, int&, int&, int*, int&, int&, int&, Random&)’:
updates_BGmix.cpp:192:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
   if(beta1try>0 | beta1try<-eta_down) indic = 0;
              ^
updates_BGmix.cpp:200:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
   if(beta1try<0 | beta1try>eta_up) indic = 0;
              ^
updates_BGmix.cpp: In function ‘void predict(double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double*, double**, double*, double**, double**, double**, double**, double*, double*, int*, double**, double**, int*, double*, double&, double&, double&, double&, double&, int&, int&, int&, int&, int&, int*, int&, Random&)’:
updates_BGmix.cpp:870:19: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  if(move_choice_bz==1 | move_choice_bz==2){
                   ^
updates_BGmix.cpp:883:24: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  else if(move_choice_bz==3 | move_choice_bz==4 |  move_choice_bz==5){
                        ^
updates_BGmix.cpp:883:65: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  else if(move_choice_bz==3 | move_choice_bz==4 |  move_choice_bz==5){
                                                                 ^
updates_BGmix.cpp:893:21: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
    if(move_choice_bz==3 | move_choice_bz==4) beta_jstar_pred = 0;
                     ^
updates_BGmix.cpp: In function ‘void predict_t(double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double*, double*, double*, int*, double**, double**, int*, double*, double&, double&, double&, double&, double&, int&, int&, int&, int&, int&, int*, int&, Random&)’:
updates_BGmix.cpp:995:19: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  if(move_choice_bz==1 | move_choice_bz==2){
                   ^
updates_BGmix.cpp:1008:24: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  else if(move_choice_bz==3 | move_choice_bz==4 |  move_choice_bz==5){
                        ^
updates_BGmix.cpp:1008:65: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  else if(move_choice_bz==3 | move_choice_bz==4 |  move_choice_bz==5){
                                                                 ^
updates_BGmix.cpp:1018:21: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
    if(move_choice_bz==3 | move_choice_bz==4) beta_jstar_pred = 0;
                     ^
updates_BGmix.cpp:989:5: warning: variable ‘ind’ set but not used [-Wunused-but-set-variable]
 int ind;
     ^
g++ -shared -L/home/biocbuild/bbs-3.5-bioc/R/lib -L/usr/local/lib -o BGmix.so BGmix_main.o rundir.o updates_BGmix.o -lm -L/home/biocbuild/bbs-3.5-bioc/R/lib -lR
rm -r ../boostIncl 
installing to /home/biocbuild/bbs-3.5-bioc/meat/BGmix.Rcheck/BGmix/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (BGmix)

BGmix.Rcheck/BGmix-Ex.timings:

nameusersystemelapsed
BGmix-package2.5360.0362.575
BGmix5.5200.0485.573
EstimatePi04.3240.5444.872
FDRforTailPP6.3001.7928.108
FDRplotTailPP2.3040.5122.821
TailPP2.0000.5202.521
calcFDR0.6000.0240.667
ccParams0.4960.0080.507
ccPred0.5360.0040.545
ccSummary0.4720.0080.483
ccTrace0.6520.0080.662
histTailPP1.9840.5042.486
plotBasic0.5400.0000.542
plotCompare0.0080.0000.010
plotFDR0.6000.0320.634
plotMixDensity1.6480.0321.682
plotPredChecks0.5240.0080.529
plotTrace0.6880.0120.699