[Rcpp-devel] Help with Rcpp
Talita Perciano
talitaperciano at gmail.com
Tue May 13 00:27:50 CEST 2014
Sure! Here is the result of R CMD INSTALL
* installing to library ‘/home/talita/R’
* installing *source* package ‘mypackage’ ...
checking for g++... g++
checking for C++ compiler default output... a.out
checking whether the C++ compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -E
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking fftw3.h usability... yes
checking fftw3.h presence... yes
checking for fftw3.h... yes
checking jpeglib.h usability... yes
checking jpeglib.h presence... yes
checking for jpeglib.h... yes
checking for inline... inline
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c equalize.cpp -o
equalize.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c freqfilters.cpp -o
freqfilters.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
incircle.c -o incircle.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
inpoly.c -o inpoly.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c interface.cpp -o
interface.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
jpegio.c -o jpegio.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c lan.cpp -o lan.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
laplacian.c -o laplacian.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c matrix_r.cpp -o
matrix_r.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c median.cpp -o median.o
gcc -std=gnu99 -I/home/users/tperciano/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
normalize.c -o normalize.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c quality.cpp -o quality.o
g++ -I/home/talita/lib/R/include -DNDEBUG -g -O2 -I/usr/local/include
-I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c save.cpp -o save.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
smooth.c -o smooth.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
sobel.c -o sobel.o
gcc -std=gnu99 -I/home/talita/lib/R/include -DNDEBUG -g -O2
-I/usr/local/include -I"/home/talita/R/Rcpp/include" -fpic -g -O2 -c
stretch.c -o stretch.o
g++ -shared -L/usr/local/lib -o mypackage.so equalize.o freqfilters.o
incircle.o inpoly.o interface.o jpegio.o lan.o laplacian.o matrix_r.o
median.o normalize.o quality.o save.o smooth.o sobel.o stretch.o -ljpeg
-lfftw3
installing to /home/talita/R/mypackage/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (mypackage)
Talita
On Mon, May 12, 2014 at 2:17 PM, Dirk Eddelbuettel <edd at debian.org> wrote:
>
> On 12 May 2014 at 14:03, Talita Perciano wrote:
> | Hi,
> |
> | I'm using Rcpp with my package and I'm having some issues with version
> 0.11.0.
> | I followed all the instructions in the manual and I don't know what is
> | happening. The NAMESPACE file of my package is:
> |
> | useDynLib(x)
> | exportPattern("^[[:alpha:]]+")
> | importFrom(Rcpp, evalCpp)
> |
> | In the DESCRIPTION file I have the following specific lines for Rcpp:
> |
> | Imports: Rcpp (>= 0.11.0)
> | LinkingTo: Rcpp
> |
> | I can run R CMD check --as-cran and R CMD INSTALL with no problems. The
> issue
> | comes when I try to use the package in R. I can load it but it seems
> that some
> | symbols are missing in the shared library of the package. I checked the
> shared
> | library and I got the following issues:
> |
> | lan.o: In function `Rcpp::Rstreambuf<false>::sync()':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:83: undefined reference to
> | `R_FlushConsole'
> | lan.o: In function `Rcpp::Rstreambuf<true>::sync()':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:79: undefined reference to
> | `R_FlushConsole'
> | lan.o: In function `Rcpp::Rstreambuf<false>::overflow(int)':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:74: undefined reference to
> | `REprintf'
> | lan.o: In function `Rcpp::Rstreambuf<false>::xsputn(char const*, long)':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:65: undefined reference to
> | `REprintf'
> | lan.o: In function `Rcpp::Rstreambuf<true>::overflow(int)':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:70: undefined reference to
> | `Rprintf'
> | lan.o: In function `Rcpp::Rstreambuf<true>::xsputn(char const*, long)':
> | ../R/Rcpp/include/Rcpp/iostream/Rstreambuf.h:61: undefined reference to
> | `Rprintf'
>
> Can you show the lines (from the shell prompt) that get executed when you
> do
>
> R CMD INSTALL nameOfYourPackage_1.2.3.tar.gz
>
> It looks like you are either not linling to R, or possibly on a system
> where
> R is built as a _static_ binary (which is mighty uncommon).
>
> These symbols should come from libR.so which is usually part of the default
> build triggered by R CMD INSTALL ....
>
> Dirk
>
> |
> | > R.version
> | _
> | platform x86_64-unknown-linux-gnu
> | arch x86_64
> | os linux-gnu
> | system x86_64, linux-gnu
> | status
> | major 3
> | minor 1.0
> | year 2014
> | month 04
> | day 10
> | svn rev 65387
> | language R
> | version.string R version 3.1.0 (2014-04-10)
> | nickname Spring Dance
> |
> |
> | I would appreciate if someone could help me with that.
> |
> | Thank you,
> | Talita
> |
> | _______________________________________________
> | Rcpp-devel mailing list
> | Rcpp-devel at lists.r-forge.r-project.org
> | https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
>
> --
> Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
>
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