Dear all,
I have been developing an R package using Rcpp to call C++ functions that use
the C subroutine library 'fftw3' that implements fast Fourier transform
algorithm. Since I have the C library 'fftw3' installed on my laptop (running
MacOS), when I checked my developed package using R CMD CHECK --as-cran, I
could pass all the checks with no errors or warnings.
However, when I submitted the package to CRAN, during the pre-test, I
encountered an error. I was wondering whether this error came from the absence
of the 'fftw3' C library on the checking machine? Or maybe I have made some
mistakes in the Makevars.win file?
I have done some search on how to use the external C library in R packages with
Rcpp.
Here is what I have provided in the Makevars.win file:
PKG_CPPFLAGS = -I$(LIB_FFTW)/include
CXX = g++
PKG_CXXFLAGS = -std=c++11
PKG_LIBS = -L$(LIB_FFTW)/lib -lfftw3
Could you please advise me on what to do?
Here is the error message:
* installing *source* package 'KSgeneral' ...
** libs
*** arch - i386
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c RcppExports.cpp -o RcppExports.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c cont_ks_dist.cpp -o cont_ks_dist.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c crossprob_new.cc -o crossprob_new.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c fftw_wrappers.cc -o fftw_wrappers.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c fftwconvolver.cc -o fftwconvolver.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c one_sided_noncrossing_probability.cc -o
one_sided_noncrossing_probability.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c one_sided_noncrossing_probability_n2.cc -o
one_sided_noncrossing_probability_n2.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c one_sided_noncrossing_probability_n2logn.cc -o
one_sided_noncrossing_probability_n2logn.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c poisson_pmf.cc -o poisson_pmf.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c read_boundaries_file.cc -o read_boundaries_file.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c string_utils.cc -o string_utils.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -I"D:/RCompile/recent/R/include"
-DNDEBUG -Id:/Rcompile/CRANpkg/extralibs215/local215/include
-I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include"
-I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -pedantic -O2 -Wall
-mtune=core2 -c two_sided_noncrossing_probability.cc -o
two_sided_noncrossing_probability.o
d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -shared -s -static-libgcc -o
KSgeneral.dll tmp.def RcppExports.o cont_ks_dist.o crossprob_new.o
fftw_wrappers.o fftwconvolver.o one_sided_noncrossing_probability.o
one_sided_noncrossing_probability_n2.o
one_sided_noncrossing_probability_n2logn.o poisson_pmf.o read_boundaries_file.o
string_utils.o two_sided_noncrossing_probability.o
-Ld:/Rcompile/CRANpkg/extralibs215/local215/lib -lfftw3
-Ld:/Compiler/gcc-4.9.3/local330/lib/i386 -Ld:/Compiler/gcc-4.9.3/local330/lib
-LD:/RCompile/recent/R/bin/i386 -lR
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x125): undefined reference to
`_imp__fftw_plan_dft_r2c_1d'
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x14f): undefined reference to
`_imp__fftw_destroy_plan'
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x29b): undefined reference to
`_imp__fftw_execute'
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x315): undefined reference to
`_imp__fftw_plan_dft_c2r_1d'
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x33f): undefined reference to
`_imp__fftw_destroy_plan'
fftw_wrappers.o:fftw_wrappers.cc:(.text+0x3bb): undefined reference to
`_imp__fftw_execute'
collect2.exe: error: ld returned 1 exit status
no DLL was created
ERROR: compilation failed for package 'KSgeneral'
* removing 'd:/RCompile/CRANincoming/R-devel/lib/KSgeneral'
Thank you very much.
Best regards,
Senren Tan
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