Hi Anirban, Just a quick note to thank you again and inform you that you were quite right.
The build of gfortran that you recommended still has a broken link, but it is still available here: http://cran.r-project.org/bin/macosx/tools/gfortran-4.2.3.dmg Once this is installed alongside Xcode 4.6 and Xcode 5.0 DP, both inline and sourceCpp now work perfectly, and Xcode development appears to be unaffected. Best regards John On 27 Jun 2013, at 14:08, Anirban Mukherjee <anirban.mukher...@gmail.com> wrote: > Hi John, > > You should only need gfortran. llvm-gcc "should" work. If you don't have > Apple's gcc, then you want the "other" gfortran from the developer website: > > http://r.research.att.com/gfortran-4.2.3.dmg > > The link seems to be down (at least I cannot access it, check with Simon > Urbanek). That gfortran is fully independent. You may be able to find the > binary from other repositories (including Python and Julia repos). I think > this particular binary is used by a lot of folks across these languages. > > I would not expect that installing gfortran would have any impact on the rest > of your development. I have not seen any issues due to any library from the > developer website. Simon is an excellent steward and I tend to blindly trust > his judgment. > > Best, > Anirban > > > On Thu, Jun 27, 2013 at 6:31 PM, John Swan <johns...@spamcop.net> wrote: > Hi Anirban, > > Thank you for your help. I believe you're right, I was coming to the same > conclusion myself. > > One thing however, I have Mountain Lion with Xcode 4.6 installed for iOS > development. As far as I understand it, gcc 4.2 is not included with that > version of Xcode. > > Don't I have to install gcc-42-5666.3-darwin11.pkg to get gcc 4.2 and > gfortran? http://r.research.att.com/tools/ states that > gfortran-lion-5666-3.pkg is for those who already have gcc 4.2 installed, but > you seem to have it working ? > > Additionally, can you tell me if installing these packages has any adverse > effect on your Xcode development environment (llvm-clang, iOS development > etc)? > > Best regards > John > > On 27 Jun 2013, at 04:20, Anirban Mukherjee <anirban.mukher...@gmail.com> > wrote: > >> inline + RcppArmadillo work on Mac. I tested the code in a Mac (Mountain >> Lion 10.8.4) before posting. Install gfortran from: >> http://r.research.att.com/gfortran-lion-5666-3.pkg. You can look here for >> more information: http://r.research.att.com/tools/. If that does not work, >> post in R-SIG-Mac. >> >> >> On Wed, Jun 26, 2013 at 7:04 PM, Anirban Mukherjee >> <anirban.mukher...@gmail.com> wrote: >> library(inline); library(RcppArmadillo) >> >> rowSumsRA <- cxxfunction(signature(x = "numeric"), plugin="RcppArmadillo", >> body='return Rcpp::wrap(arma::sum(as<arma::mat>(x),0));') >> >> colSumsRA <- cxxfunction(signature(x = "numeric"), plugin="RcppArmadillo", >> body='return Rcpp::wrap(arma::sum(as<arma::mat>(x),1));') >> >> Anirban >> >> Date: Wed, 26 Jun 2013 11:11:04 +0200 >> From: John Swan <johns...@spamcop.net> >> To: rcpp-devel@lists.r-forge.r-project.org >> Subject: [Rcpp-devel] Seamless Rcpp gives errors with RcppArmadillo >> Message-ID: <99384497-d7c4-4bc6-859e-c3fa1ab5f...@spamcop.net> >> Content-Type: text/plain; charset="windows-1252" >> >> Hi, >> >> I just purchased Dirk's book on Seamless Rcpp and I'm finding it very useful. >> >> However, I'm having a strange error running RcppArmadillo inline, where the >> book examples seem to manage it effortlessly. >> I've been stuck on this for hours. Any help is most appreciated. >> >> I am using R 3.0 on Mac OS X Mountain Lion 10.8.4, sessionInfo output: >> > sessionInfo() >> R version 3.0.1 (2013-05-16) >> Platform: x86_64-apple-darwin10.8.0 (64-bit) >> >> locale: >> [1] en_GB.UTF-8/C/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8 >> >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> >> other attached packages: >> [1] inline_0.3.12 RcppArmadillo_0.3.900.0 Rcpp_0.10.3 >> BDgraph_2.6 huge_1.2.4 MASS_7.3-26 >> igraph_0.6.5-2 >> [8] Matrix_1.0-12 lattice_0.20-15 >> >> loaded via a namespace (and not attached): >> [1] grid_3.0.1 tools_3.0.1 >> >> >> I have the following in a source file (somefile.R): >> library(Rcpp) >> library(inline) >> library(RcppArmadillo) >> >> rowSumsRcppArmadilloFunction <- ' >> arma::rowvec rowSumsRcppArmadillo(NumericMatrix x){ >> arma::mat X = arma::mat(x.begin(), x.nrow(), x.ncol(), false); >> return arma::sum(X, 1); >> }' >> >> rowSumsRcppArmadillo <- cxxfunction(signature(), >> plugin="Rcpp", >> incl=rowSumsRcppArmadilloFunction, >> body=' >> return Rcpp::wrap(rowSumsRcppArmadillo()); >> ') >> >> >> If I try to execute this in R console with the source command, I get: >> >> > source("/Users/me/Desktop/R/somefile.R") >> file29967eb06d23.cpp:20: error: ?arma? has not been declared >> file29967eb06d23.cpp:20: error: expected constructor, destructor, or type >> conversion before ?rowSumsRcppArmadillo? >> file29967eb06d23.cpp: In function ?SEXPREC* file29967eb06d23()?: >> file29967eb06d23.cpp:35: error: ?rowSumsRcppArmadillo? was not declared in >> this scope >> make: *** [file29967eb06d23.o] Error 1 >> >> ERROR(s) during compilation: source code errors or compiler configuration >> errors! >> >> Program source: >> 1: >> 2: // includes from the plugin >> 3: >> 4: #include <Rcpp.h> >> 5: >> 6: >> 7: #ifndef BEGIN_RCPP >> 8: #define BEGIN_RCPP >> 9: #endif >> 10: >> 11: #ifndef END_RCPP >> 12: #define END_RCPP >> 13: #endif >> 14: >> 15: using namespace Rcpp; >> 16: >> 17: >> 18: // user includes >> 19: >> 20: arma::rowvec rowSumsRcppArmadillo(NumericMatrix x){ >> 21: arma::mat X = arma::mat(x.begin(), x.nrow(), x.ncol(), false); >> 22: return arma::sum(X, 1); >> 23: } >> 24: >> 25: // declarations >> 26: extern "C" { >> 27: SEXP file29967eb06d23( ) ; >> 28: } >> 29: >> 30: // definition >> 31: >> 32: SEXP file29967eb06d23( ){ >> 33: BEGIN_RCPP >> 34: >> 35: return Rcpp::wrap(rowSumsRcppArmadillo()); >> 36: >> 37: END_RCPP >> 38: } >> 39: >> 40: >> Error in compileCode(f, code, language = language, verbose = verbose) : >> Compilation ERROR, function(s)/method(s) not created! >> file29967eb06d23.cpp:20: error: ?arma? has not been declared >> file29967eb06d23.cpp:20: error: expected constructor, destructor, or type >> conversion before ?rowSumsRcppArmadillo? >> file29967eb06d23.cpp: In function ?SEXPREC* file29967eb06d23()?: >> file29967eb06d23.cpp:35: error: ?rowSumsRcppArmadillo? was not declared in >> this scope >> make: *** [file29967eb06d23.o] Error 1 >> In addition: Warning message: >> running command '/Library/Frameworks/R.framework/Resources/bin/R CMD SHLIB >> file29967eb06d23.cpp 2> file29967eb06d23.cpp.err.txt' had status 1 >> >> I added these: >> 20: #include <RcppArmadillo.h> >> 21: // [[Rcpp::depends(RcppArmadillo)]] >> 22: >> 23: // [[Rcpp::export]] >> 24: >> 25: arma::rowvec rowSumsRcppArmadillo(NumericMatrix x){ >> 26: arma::mat X = arma::mat(x.begin(), x.nrow(), x.ncol(), false); >> 27: return arma::sum(X, 1); >> 28: } >> >> But then I just get this error: >> Error in compileCode(f, code, language = language, verbose = verbose) : >> Compilation ERROR, function(s)/method(s) not created! >> file77e03dcff275.cpp:20:27: error: RcppArmadillo.h: No such file or directory >> file77e03dcff275.cpp:25: error: ?arma? has not been declared >> file77e03dcff275.cpp:25: error: expected constructor, destructor, or type >> conversion before ?rowSumsRcppArmadillo? >> file77e03dcff275.cpp: In function ?SEXPREC* file77e03dcff275()?: >> file77e03dcff275.cpp:40: error: ?rowSumsRcppArmadillo? was not declared in >> this scope >> make: *** [file77e03dcff275.o] Error 1 >> In addition: Warning message: >> running command '/Library/Frameworks/R.framework/Resources/bin/R CMD SHLIB >> file77e03dcff275.cpp 2> file77e03dcff275.cpp.err.txt' had status 1 >> >> >> >> So, I thought I'd try compilng it as a package, but when I try to call the >> package in R, I get errors like: >> Error in sourceCpp("./R/somefile.R") : >> Error 1 occurred building shared library. >> >> WARNING: The tools required to build C++ code for R were not found. >> >> Please install Command Line Tools for XCode (or equivalent). >> >> ld: warning: directory not found for option >> '-L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64' >> ld: warning: directory not found for option '-L/usr/local/lib/x86_64' >> ld: warning: directory not found for option >> '-L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3' >> ld: library not found for -lgfortran >> collect2: ld returned 1 exit status >> make: *** [sourceCpp_13326.so] Error 1 >> >> >> The XCode command line tools *are* installed - I'm an iOS developer so I >> always make sure that they are there: >> >> John-MBPR:BDGraphSource johnswan$ which llvm-g++ >> /usr/bin/llvm-g++ >> John-MBPR:BDGraphSource johnswan$ llvm-g++ --version >> i686-apple-darwin11-llvm-g++-4.2 (GCC) 4.2.1 (Based on Apple Inc. build >> 5658) (LLVM build 2336.11.00) >> Copyright (C) 2007 Free Software Foundation, Inc. >> This is free software; see the source for copying conditions. There is NO >> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. >> >> >> Can anyone help? >> >> Thanks >> John >> -------------- next part -------------- >> An HTML attachment was scrubbed... >> URL: >> <http://lists.r-forge.r-project.org/pipermail/rcpp-devel/attachments/20130626/f34959cc/attachment-0001.html> >> >> ------------------------------ >> >> _______________________________________________ >> Rcpp-devel mailing list >> Rcpp-devel@lists.r-forge.r-project.org >> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel > >
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