[Rcpp-devel] package install problem
Dirk Eddelbuettel
edd at debian.org
Wed Feb 22 00:55:24 CET 2012
On 21 February 2012 at 23:39, Søren Højsgaard wrote:
| Dear list,
|
| I get what I believe to be similar errors on R.2.14.1, but things work on R-devel; please see transcript below.
Hm. It could be an issue with Rtools. R-devel NEWS (derived from the NEWS
file in SVN) had this too the other day:
2.14.2 PACKAGE INSTALLATION (Windows)
The preferred toolchain has changed since the one used for R 2.12.0 to
2.14.1: see the‘R Installation and Administration manual’. Compiled code
(except DLLs) may be incompatible with previous toolchains (and compiled C++
code almost certainly will be: users of ‘Rcpp’ take care).
So make sure you don't mix compilers -- but I think this refers to Rtools 2.15.
For what it is worth, I just re-ran things on a virtual machine with plain
old R 2.14.1 and (I think) Rtools 2.14 and it all worked.
Dirk
| Regards
| Søren
|
|
|
| ==== R 2.14.1 ====
|
| > library(Rcpp)
| > library(inline)
| >
| > src <- '
| + Rcpp::NumericMatrix Am(A);
| + int nrows = Am.nrow();
| + int ncolumns = Am.ncol();
| + for (int i = 0; i < ncolumns; i++) {
| + for (int j = 1; j < nrows; j++) {
| + Am(j,i) = Am(j,i) + Am(j-1,i);
| + }
| + }
| + return Am;
| + '
| > fun <- cxxfunction(signature(A = "numeric"), body = src, plugin="Rcpp")
| c:/programs/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../lib/libstdc++.a(stdexcept.o):(.text$_ZNSt11range_errorD0Ev+0x0): multiple definition of `std::range_error::~range_error()'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RcppCommon.o):RcppCommon.cpp:(.text$_ZNSt11range_errorD0Ev[std::range_error::~range_error()]+0x0): first defined here
| c:/programs/rtools/gcc-4.6.3/bin/../lib/gcc/i686-w64-mingw32/4.6.3/../../../../lib/libstdc++.a(stdexcept.o):(.text$_ZNSt11range_errorD2Ev+0x0): multiple definition of `std::range_error::~range_error()'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RcppCommon.o):RcppCommon.cpp:(.text$_ZNSt11range_errorD1Ev[std::range_error::~range_error()]+0x0): first defined here
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(exceptions.o):exceptions.cpp:(.text+0x392): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(exceptions.o):exceptions.cpp:(.text+0x44e): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(exceptions.o):exceptions.cpp:(.text+0x519): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(exceptions.o):exceptions.cpp:(.text+0x6f1): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(exceptions.o):exceptions.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RcppCommon.o):RcppCommon.cpp:(.text+0x72b): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RcppCommon.o):RcppCommon.cpp:(.text+0x777): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RcppCommon.o):RcppCommon.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RObject.o):RObject.cpp:(.text+0x409): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RObject.o):RObject.cpp:(.text+0x7c0): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RObject.o):RObject.cpp:(.text$_ZNSt6vectorISsSaISsEE13_M_insert_auxEN9__gnu_cxx17__normal_iteratorIPSsS1_EERKSs[std::vector<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::_M_insert_aux(__gnu_cxx::__normal_iterator<std::basic_string<char, std::char_traits<char>, std::allocator<char> >*, std::vector<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::basic_string<char, std::char_traits<char>, std::allocator<char> > > > >, std::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)]+0x361): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RObject.o):RObject.cpp:(.text$_ZNSt6vectorISsSaISsEE13_M_insert_auxEN9__gnu_cxx17__normal_iteratorIPSsS1_EERKSs[std::vector<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::basic_string<char, std::char_traits<char>, std::allocator<char> > > >::_M_insert_aux(__gnu_cxx::__normal_iterator<std::basic_string<char, std::char_traits<char>, std::allocator<char> >*, std::vector<std::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::basic_string<char, std::char_traits<char>, std::allocator<char> > > > >, std::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)]+0x370): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(RObject.o):RObject.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(r_cast.o):r_cast.cpp:(.text+0x4b9): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(r_cast.o):r_cast.cpp:(.text$_ZN4Rcpp14not_compatibleC1ERKSs[Rcpp::not_compatible::not_compatible(std::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)]+0x43): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(r_cast.o):r_cast.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(debugging.o):debugging.cpp:(.text+0x6b4): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(debugging.o):debugging.cpp:(.text+0x6d7): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(debugging.o):debugging.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.text+0x21f): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.text+0x23c): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.text+0x2d3): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.text+0x35a): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.text$_ZStplIcSt11char_traitsIcESaIcEESbIT_T0_T1_ERKS6_PKS3_[std::basic_string<char, std::char_traits<char>, std::allocator<char> > std::operator+<char, std::char_traits<char>, std::allocator<char> >(std::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char const*)]+0x53): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Evaluator.o):Evaluator.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0x147): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0x204): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0x693): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0x6dc): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0xd4f): undefined reference to `_Unwind_Resume'
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.text+0xe31): more undefined references to `_Unwind_Resume' follow
| C:/programs/R/current/library/Rcpp/lib/i386/libRcpp.a(Environment.o):Environment.cpp:(.eh_frame+0x12): undefined reference to `__gxx_personality_v0'
| collect2: ld returned 1 exit status
|
|
| > sessionInfo()
| R version 2.14.1 Patched (2012-01-27 r58216)
| Platform: i386-pc-mingw32/i386 (32-bit)
|
| locale:
| [1] LC_COLLATE=Danish_Denmark.1252 LC_CTYPE=Danish_Denmark.1252 LC_MONETARY=Danish_Denmark.1252 LC_NUMERIC=C LC_TIME=Danish_Denmark.1252
|
| attached base packages:
| [1] stats graphics grDevices utils datasets methods base
|
| other attached packages:
| [1] inline_0.3.8 Rcpp_0.9.10 SHDtools_1.0
|
| loaded via a namespace (and not attached):
| [1] tools_2.14.1
|
| ==== R devel ====
|
|
| > library(Rcpp)
| > library(inline)
| >
| > src <- '
| + Rcpp::NumericMatrix Am(A);
| + int nrows = Am.nrow();
| + int ncolumns = Am.ncol();
| + for (int i = 0; i < ncolumns; i++) {
| + for (int j = 1; j < nrows; j++) {
| + Am(j,i) = Am(j,i) + Am(j-1,i);
| + }
| + }
| + return Am;
| + '
| > fun <- cxxfunction(signature(A = "numeric"), body = src, plugin="Rcpp")
| > sessionInfo()
| R Under development (unstable) (2012-02-16 r58364)
| Platform: i386-pc-mingw32/i386 (32-bit)
|
| locale:
| [1] LC_COLLATE=Danish_Denmark.1252 LC_CTYPE=Danish_Denmark.1252 LC_MONETARY=Danish_Denmark.1252 LC_NUMERIC=C LC_TIME=Danish_Denmark.1252
|
| attached base packages:
| [1] stats graphics grDevices utils datasets methods base
|
| other attached packages:
| [1] inline_0.3.8 Rcpp_0.9.10 SHDtools_1.0
|
| loaded via a namespace (and not attached):
| [1] tools_2.15.0
|
|
|
|
| -----Oprindelig meddelelse-----
| Fra: rcpp-devel-bounces at r-forge.wu-wien.ac.at [mailto:rcpp-devel-bounces at r-forge.wu-wien.ac.at] På vegne af Dirk Eddelbuettel
| Sendt: 21. februar 2012 22:56
| Til: Dirk Eddelbuettel
| Cc: rcpp-devel at lists.r-forge.r-project.org
| Emne: Re: [Rcpp-devel] package install problem
|
|
| On 21 February 2012 at 12:55, Dirk Eddelbuettel wrote:
| | For what it is worth, a package of mine just built fine on win-builder
| | in for both r-devel and r-release. I use this as src/Makevars.win
|
| David reported (off-list) that win-builder and another machine also worked for him.
|
| So far, this looks like it is a local issue, possibly a mix-up between different Rtools versions, rather than something wrong with Rcpp 0.9.10.
|
| Dirk
|
| --
| "Outside of a dog, a book is a man's best friend. Inside of a dog, it is too dark to read." -- Groucho Marx _______________________________________________
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