Dear Uwe,
Thank you very much for your help. Sorry that I misread your email about the maintainer. @Dirk<mailto:e...@debian.org> Thank you for pointing this out.@Ege<mailto:ru...@math.aau.dk> Best regards, Senren ________________________________ From: Uwe Ligges <lig...@statistik.tu-dortmund.de> Sent: 01 December 2017 05:51:35 To: Tan, Senren; Dirk Eddelbuettel Cc: r-package-devel@r-project.org Subject: Re: [R-pkg-devel] Errors in the pre-test after submitting the R package On 30.11.2017 22:46, Tan, Senren wrote: > Dear Uwe, > > > |One more question: Which version of fftw do you need for these symbols? > > > The system requirement for fftw is fftw-3.3.4 or above. I have tried to > build that on fftw-3.3.4, as well as on fftw-3.3.6. > The fftw on winbuilder is rather outdated. I see what I can do to update it during the next days. Best, Uwe Ligges > > Thank you very much. > > > Best regards, > > Senren > > > > > ------------------------------------------------------------------------ > *From:* Uwe Ligges <lig...@statistik.tu-dortmund.de> > *Sent:* 01 December 2017 05:33:44 > *To:* Dirk Eddelbuettel; Tan, Senren > *Cc:* r-package-devel@r-project.org > *Subject:* Re: [R-pkg-devel] Errors in the pre-test after submitting the > R package > > > On 30.11.2017 19:57, Dirk Eddelbuettel wrote: >> >> Hi Senren, >> >> On 30 November 2017 at 16:49, Tan, Senren wrote: >> | Thank you very much for your reply. >> >> My pleasure. You did well here. >> >> | I have been trying to look at the R package fftw developed by Olaf and Uwe >> over the last few days. And I have tried to make use of the configure.ac. >> file in their source package to generate the configure script. I tried R CMD >> Check on my Mac, as well as on some machines running Linux. It seems that I >> could pass all the R > CMD Checks on these Unix / Linux machines. >> >> Great! [ Configure/autoconf are hated by many but it is really just a shell >> scripting variant. I don't mind it as much. And great when it works. ] >> >> | Also, I have come across the following website >> https://cran.r-project.org/bin/windows/contrib/ThirdPartySoftware.html, > on which it seems to suggest that the C library fftw3 (with the make > variable LIB_FFTW) is installed on the CRAN build machine for Windows. >> >> Yes! >> | >> | So, I tried the following Makevars.win. >> | >> | PKG_CPPFLAGS = -I$(LIB_FFTW)/include -I$(LIB_FFTW) >> | CXX11 = g++ >> | PKG_CXXFLAGS = -std=c++11 >> | PKG_LIBS = -L$(LIB_FFTW)/lib${R_ARCH} -lfftw3 >> >> That looks correct to me (assuming LIB_FFTW is the chosen name). I do >> something similar with my packages linking to the GNU GSL. >> >> | However, when I tried to re-submit the package to CRAN, I still got the >> same error message on the pre-test as follows, suggesting that the machine >> had not detected the fftw3 library. >> | >> | ********************************************** >> | WARNING: this package has a configure script >> | It probably needs manual configuration >> | ********************************************** >> | >> | ** libs >> | >> | *** arch - i386 >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c RcppExports.cpp -o RcppExports.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c cont_ks_dist.cpp -o cont_ks_dist.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c crossprob_new.cc -o crossprob_new.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c fftw_wrappers.cc -o fftw_wrappers.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c fftwconvolver.cc -o fftwconvolver.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -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++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -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++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -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++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c poisson_pmf.cc -o poisson_pmf.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c read_boundaries_file.cc -o > read_boundaries_file.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -O2 -Wall >> -mtune=core2 -c string_utils.cc -o string_utils.o >> | d:/Compiler/gcc-4.9.3/mingw_32/bin/g++ -std=gnu++11 >> -I"D:/RCompile/recent/R/include" -DNDEBUG >> -Id:/Rcompile/CRANpkg/extralibs215/local215/include >> -Id:/Rcompile/CRANpkg/extralibs215/local215 >> -I"d:/RCompile/CRANpkg/lib/3.5/Rcpp/include" >> -I"d:/Compiler/gcc-4.9.3/local330/include" -std=c++11 -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/i386 -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 >> >> That looks like it expanded right. >> >> What I would do now is take one of the working packages, create a local >> tarball _and put my name and email into Maintainer_ because that way the >> win-builder test log will come back to me. And then submit, and compare. >> >> | 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 >> >> And I presume this works locally for you, ie these symbols are in fact in the >> DLL you try to use? > > One more question: Which version of fftw do you need for these symbols? > > Best, > Uwe Ligges > > > >> | I was wondering whether I should include in the configure.ac file a few >> lines about downloading the library fftw3 when it is not available on the >> machine? Or have I made some mistakes in the Makevars.win file? >> >> You could -- but if it works on *nix you can leave it alone. >> >> | Thank you very much and I apologize for any inconvenience I may have >> caused you. >> >> You are using the mailing list for the very purpose it was created for so no >> apology needed or accepted! >> >> Cheers, Dirk >> [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
