[Rcpp-devel] Unable to install RcppArmadillo from CRAN or from SVN archive on Ubuntu 10.10
I don't know if this is useful, but the results from a grep I did on a different system suggest that include/armadillo_bits/arma_version.hpp might be a file to look into: grep -i arma * */* */*/* |grep -i ver DESCRIPTION: Armadillo library (currently version 1.1.8). Thus users do not DESCRIPTION: Armadillo is licensed under the GNU LGPL version 3 or later, while NEWS: o Upgraded to Armadillo Version 1.1.8 "Kangaroo Steak" NEWS: o Upgraded to Armadillo Version 1.1.6 ?Baby Carpet Shark? NEWS: o Upgraded to Armadillo Version 1.1.4 ?Manta Lodge? NEWS: o Upgraded to Armadillo Version 1.1.2 ?Flood Kayak? NEWS: o Upgraded to Armadillo Version 1.1.0 ?Climate Vandal? html/00Index.html:</div><h2>Documentation for package ‘RcppArmadillo’ version 0.2.16</h2> include/armadillo: #include "armadillo_bits/arma_version.hpp" unitTests/runTests.R: stop( "RcppArmadillo unit tests need at least the version 0.3.5 of inline" ) include/armadillo_bits/arma_version.hpp:// This file is part of the Armadillo C++ library. include/armadillo_bits/arma_version.hpp://! \addtogroup arma_version include/armadillo_bits/arma_version.hpp:#define ARMA_VERSION_MAJOR 1 include/armadillo_bits/arma_version.hpp:#define ARMA_VERSION_MINOR 1 include/armadillo_bits/arma_version.hpp:#define ARMA_VERSION_PATCH 8 include/armadillo_bits/arma_version.hpp:#define ARMA_VERSION_NAME "Kangaroo Steak" include/armadillo_bits/arma_version.hpp:struct arma_version include/armadillo_bits/arma_version.hpp: static const unsigned int major = ARMA_VERSION_MAJOR; include/armadillo_bits/arma_version.hpp: static const unsigned int minor = ARMA_VERSION_MINOR; include/armadillo_bits/arma_version.hpp: static const unsigned int patch = ARMA_VERSION_PATCH; include/armadillo_bits/arma_version.hpp: const char* nickname = ARMA_VERSION_NAME; include/armadillo_bits/arma_version.hpp: ss << arma_version::major include/armadillo_bits/arma_version.hpp: << arma_version::minor include/armadillo_bits/arma_version.hpp: << arma_version::patch include/armadillo_bits/arrayops_proto.hpp: convert_cx_scalar(out_eT& out, const in_eT& in, const typename arma_not_cx<out_eT>::result* junk1 = 0, const typename arma_not_cx< in_eT>::result* junk2 = 0); include/armadillo_bits/arrayops_proto.hpp: convert_cx_scalar(out_eT& out, const std::complex<in_T>& in, const typename arma_not_cx<out_eT>::result* junk = 0); include/armadillo_bits/compiler_setup.hpp: #define ARMA_GCC_VERSION (__GNUC__ * 10000 + __GNUC_MINOR__ * 100 + __GNUC_PATCHLEVEL__) include/armadillo_bits/compiler_setup.hpp: #if (ARMA_GCC_VERSION >= 40200) include/armadillo_bits/compiler_setup.hpp: #if (ARMA_GCC_VERSION >= 40300) include/armadillo_bits/compiler_setup.hpp: #undef ARMA_GCC_VERSION include/armadillo_bits/debug.hpp: const char* nickname = ARMA_VERSION_NAME; include/armadillo_bits/debug.hpp: << arma_version::major << '.' << arma_version::minor << '.' << arma_version::patch . . .
On 4/28/11 4:14 PM, "Douglas Bates" <bates at stat.wisc.edu> wrote:
By way of a postscript, "R CMD check Rcpp" still fails for me on a
segmentation fault in the unit test called test.sugar.asvector on this
setup (Ubuntu 10.10, g++ 4.4.5 and R-2.13.0 installed from the CRAN
repository for Ubuntu packages).
Executing test function test.sugar.asvector ...
*** caught segfault ***
address 0x3, cause 'memory not mapped'
Traceback:
1: .Primitive(".Call")(<pointer: 0x7fdd3f2ae4c7>, x, y, z)
2: fx(1:4, 1:5, diag(1:5))
3: func()
...
I'm thinking of becoming a theoretician. The worst that can happen by
way of hardware/software problems is your pencil point breaking.
On Thu, Apr 28, 2011 at 2:53 PM, Douglas Bates <bates at stat.wisc.edu> wrote:
I have been facing this problem for months now and I still don't know why other users of Ubuntu 10.10 using $ g++ --version g++ (Ubuntu/Linaro 4.4.4-14ubuntu5) 4.4.5 Copyright (C) 2010 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 install RcppArmadillo and I can't. ?Most recently I tried to install the source package from CRAN and got the same error as I have been getting for months.
install.packages("RcppArmadillo", repos="http://cran.fhcrc.org")
Installing package(s) into ?/home/bates/R/x86_64-unknown-linux-gnu-library/2.13? (as ?lib? is unspecified) trying URL 'http://cran.fhcrc.org/src/contrib/RcppArmadillo_0.2.19.tar.gz' Content type 'application/x-gzip' length 259638 bytes (253 Kb) opened URL ================================================== downloaded 253 Kb * installing *source* package ?RcppArmadillo? ... ** libs ccache g++ -I/usr/share/R/include -I"/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/Rcpp/include" -I../inst/include -fpic ?-g -Wall -pipe -pedantic -c RcppArmadillo.cpp -o RcppArmadillo.o ccache g++ -I/usr/share/R/include -I"/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/Rcpp/include" -I../inst/include -fpic ?-g -Wall -pipe -pedantic -c fastLm.cpp -o fastLm.o g++ -shared -o RcppArmadillo.so RcppArmadillo.o fastLm.o -L/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/Rcpp/lib -lRcpp -Wl,-rpath,/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/Rcpp/lib -llapack -lblas -lgfortran -lm -L/usr/lib64/R/lib -lR installing to /home/bates/R/x86_64-unknown-linux-gnu-library/2.13/RcppArmadillo/libs ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ... ** testing if installed package can be loaded Error in dyn.load(file, DLLpath = DLLpath, ...) : ?unable to load shared object '/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/RcppArmadillo/libs/RcppA rmadillo.so': ?/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/RcppArmadillo/libs/RcppA rmadillo.so: undefined symbol: _ZN4arma12arma_version5majorE Error: loading failed Execution halted ERROR: loading failed * removing ?/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/RcppArmadillo? * restoring previous ?/home/bates/R/x86_64-unknown-linux-gnu-library/2.13/RcppArmadillo? The downloaded packages are in ? ? ? ??/tmp/RtmpoJ3I0u/downloaded_packages? Warning message: In install.packages("RcppArmadillo", repos = "http://cran.fhcrc.org") : ?installation of package 'RcppArmadillo' had non-zero exit status
sessionInfo()
R version 2.13.0 (2011-04-13) Platform: x86_64-pc-linux-gnu (64-bit) locale: ?[1] LC_CTYPE=en_US.UTF-8 ? ? ? LC_NUMERIC=C ?[3] LC_TIME=en_US.UTF-8 ? ? ? ?LC_COLLATE=en_US.UTF-8 ?[5] LC_MONETARY=C ? ? ? ? ? ? ?LC_MESSAGES=en_US.UTF-8 ?[7] LC_PAPER=en_US.UTF-8 ? ? ? LC_NAME=C ?[9] LC_ADDRESS=C ? ? ? ? ? ? ? LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats ? ? graphics ?grDevices utils ? ? datasets ?methods ? base loaded via a namespace (and not attached): [1] tools_2.13.0 The version of the source file RcppArmadillo/src/RcppArmadillo.cpp that I have (SVN version 3012 for the file - the source code package is at SVN version 3023) does indeed use arma::version::major, arma::version:minor and arma::version::patch but they aren't defined any place that I can see. What am I missing here?
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