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###
### Running command:
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###   chmod a+r MACPET -R && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MACPET
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* checking for file 'MACPET/DESCRIPTION' ... OK
* preparing 'MACPET':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package 'MACPET' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/bigmemory/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/bigmemory/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Stage_0_FastqFilteringSubFunctions.cpp -o Stage_0_FastqFilteringSubFunctions.o
Stage_0_FastqFilteringSubFunctions.cpp: In function 'SEXPREC* FilterFastqYield_fun_Rcpp(int&, std::vector<std::__cxx11::basic_string<char> >&, Rcpp::NumericVector&, std::vector<std::__cxx11::basic_string<char> >&, Rcpp::NumericVector&, std::__cxx11::string&, std::__cxx11::string&, int&, int&, int&)':
Stage_0_FastqFilteringSubFunctions.cpp:55:36: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
         if(SreadFastq1[i].find(NNs)!=-1||SreadFastq2[i].find(NNs)!=-1){
            ~~~~~~~~~~~~~~~~~~~~~~~~^~~~
Stage_0_FastqFilteringSubFunctions.cpp:55:66: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
         if(SreadFastq1[i].find(NNs)!=-1||SreadFastq2[i].find(NNs)!=-1){
                                          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/bigmemory/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Stage_3_PeakFinderSubFunctions.cpp -o Stage_3_PeakFinderSubFunctions.o
Stage_3_PeakFinderSubFunctions.cpp: In function 'void Mstep2D_Rcpp(Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, const int&, const int&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericMatrix&, const NumericMatrix&)':
Stage_3_PeakFinderSubFunctions.cpp:1146:76: error: 'DOUBLE_EPS' was not declared in this scope
             double Ak_g=1.0/std::max(1.0-B_my_g[g-1]/C_my_g[g-1],std::sqrt(DOUBLE_EPS));
                                                                            ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1146:76: note: suggested alternative: 'ENABLE_NLS'
             double Ak_g=1.0/std::max(1.0-B_my_g[g-1]/C_my_g[g-1],std::sqrt(DOUBLE_EPS));
                                                                            ^~~~~~~~~~
                                                                            ENABLE_NLS
Stage_3_PeakFinderSubFunctions.cpp: In function 'void NR_lambdax_g_Rcpp(double&, const double&, const double&, const double&)':
Stage_3_PeakFinderSubFunctions.cpp:1217:45: error: 'DOUBLE_EPS' was not declared in this scope
         if(lambdax>=0.0) lambdax=-std::sqrt(DOUBLE_EPS);
                                             ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1217:45: note: suggested alternative: 'ENABLE_NLS'
         if(lambdax>=0.0) lambdax=-std::sqrt(DOUBLE_EPS);
                                             ^~~~~~~~~~
                                             ENABLE_NLS
Stage_3_PeakFinderSubFunctions.cpp:1218:50: error: 'DOUBLE_EPS' was not declared in this scope
         if(lambdax<=-1.0) lambdax=-1.0+std::sqrt(DOUBLE_EPS);
                                                  ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1218:50: note: suggested alternative: 'ENABLE_NLS'
         if(lambdax<=-1.0) lambdax=-1.0+std::sqrt(DOUBLE_EPS);
                                                  ^~~~~~~~~~
                                                  ENABLE_NLS
Stage_3_PeakFinderSubFunctions.cpp: In function 'void NR_lambday_g_Rcpp(double&, const double&, const double&, const double&)':
Stage_3_PeakFinderSubFunctions.cpp:1257:48: error: 'DOUBLE_EPS' was not declared in this scope
         if(lambday>=1.0) lambday=1.0-std::sqrt(DOUBLE_EPS);
                                                ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1257:48: note: suggested alternative: 'ENABLE_NLS'
         if(lambday>=1.0) lambday=1.0-std::sqrt(DOUBLE_EPS);
                                                ^~~~~~~~~~
                                                ENABLE_NLS
Stage_3_PeakFinderSubFunctions.cpp:1258:44: error: 'DOUBLE_EPS' was not declared in this scope
         if(lambday<=0.0) lambday=std::sqrt(DOUBLE_EPS);
                                            ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1258:44: note: suggested alternative: 'ENABLE_NLS'
         if(lambday<=0.0) lambday=std::sqrt(DOUBLE_EPS);
                                            ^~~~~~~~~~
                                            ENABLE_NLS
make: *** [C:/Users/BIOCBU~1/BBS-3~1.14-/R/etc/x64/Makeconf:245: Stage_3_PeakFinderSubFunctions.o] Error 1
ERROR: compilation failed for package 'MACPET'
* removing 'C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/Rtmp6ZUxYF/Rinst11d414c7a39/MACPET'
      -----------------------------------
ERROR: package installation failed