[R-pkg-devel] Setting up R-devel in Linux Mint 17.1 64-bit
MAURICIO ZAMBRANO BIGIARINI
mauricio.zambrano at ufrontera.cl
Tue Jul 21 00:49:59 CEST 2015
---------- Forwarded message ----------
From: Dirk Eddelbuettel <edd at debian.org>
Date: 20 July 2015 at 19:21
Subject: Re: [R-pkg-devel] Setting up R-devel in Linux Mint 17.1 64-bit
To: MAURICIO ZAMBRANO BIGIARINI <mauricio.zambrano at ufrontera.cl>
Cc: Dirk Eddelbuettel <edd at debian.org>, r-package-devel at r-project.org
On 20 July 2015 at 18:56, MAURICIO ZAMBRANO BIGIARINI wrote:
| how can I be sure that I I enabled the shared library support ?
edd at max:~/svn/r-devel$ ./configure --help | grep enable-R-sh
--enable-R-shlib build the shared/dynamic library 'libR' [no]
edd at max:~/svn/r-devel$
Make sure you set --enable-R-shlib.
It is in the script which you linked to in your previous email.
I thought I did it already when running configure:
./configure --prefix=/usr/local/lib/R-devel --enable-R-shlib
--with-blas --with-lapack --with-readline
--without-recommended-packages
I just tried to run again your script (mentioned in my previous
e-mail) from scratch and I'm still getting an error:
R is now configured for x86_64-unknown-linux-gnu
Source directory: .
Installation directory: /usr/local/lib/R-devel
C compiler: ccache gcc -ggdb -pipe -std=gnu99 -Wall -pedantic
Fortran 77 compiler: ccache gfortran -g -O2
C++ compiler: ccache g++ -ggdb -pipe -Wall -pedantic
C++11 compiler: ccache g++ -std=c++11 -ggdb -pipe -Wall -pedantic
Fortran 90/95 compiler: ccache gfortran -g -O2
Obj-C compiler:
Interfaces supported: X11, tcltk
External libraries: readline, BLAS(generic), LAPACK(generic), curl
Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU
Options enabled: shared R library, R profiling
Capabilities skipped:
Options not enabled: shared BLAS, memory profiling
Recommended packages: no
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/doc/manual'
make[1]: Nothing to be done for `front-matter'.
make[1]: Nothing to be done for `html-non-svn'.
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/doc/manual'
SVN-REVISION is unchanged
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/m4'
make[1]: Nothing to be done for `R'.
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/m4'
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/tools'
make[1]: Nothing to be done for `R'.
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/tools'
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/doc'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/doc/html'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/doc/html'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/doc/manual'
make[2]: Nothing to be done for `R'.
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/doc/manual'
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/doc'
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/etc'
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/etc'
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/share'
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/share'
make[1]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/scripts'
creating src/scripts/R.fe
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/scripts'
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/scripts'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/scripts'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/include'
config.status: creating src/include/config.h
config.status: src/include/config.h is unchanged
Rmath.h is unchanged
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/include/R_ext'
make[3]: Nothing to be done for `R'.
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/include/R_ext'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/include'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/extra'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[4]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[4]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[4]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[4]: `libtre.a' is up to date.
make[4]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/extra/tre'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/extra'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/appl'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/appl'
make[3]: `libappl.a' is up to date.
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/appl'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/appl'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/nmath'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/nmath'
make[3]: `libnmath.a' is up to date.
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/nmath'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/nmath'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
make[3]: `libunix.a' is up to date.
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
ccache gcc -I. -I../../src/include -I../../src/include
-I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -ggdb -pipe
-std=gnu99 -Wall -pedantic -L/usr/local/lib
-DR_HOME='"/home/hzambran/SVN/R-devel/trunk"' \
-o Rscript ./Rscript.c
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/unix'
make[2]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/main'
make[3]: Entering directory `/home/hzambran/SVN/R-devel/trunk/src/main'
ccache gcc -shared -fopenmp -L/usr/local/lib -o libR.so
CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o apply.o
arithmetic.o array.o attrib.o bind.o builtin.o character.o coerce.o
colors.o complex.o connections.o context.o cum.o dcf.o datetime.o
debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o
edit.o engine.o envir.o errors.o eval.o format.o gevents.o gram.o
gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o
iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o
match.o memory.o names.o objects.o options.o paste.o platform.o plot.o
plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o
qsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o
scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o
subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o
util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o
xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o`
../extra/tre/libtre.a -lblas -lgfortran -lm -lquadmath -lreadline
-lpcre -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n
/usr/bin/ld: ../appl/dchdc.o: relocation R_X86_64_32 against `.rodata'
can not be used when making a shared object; recompile with -fPIC
../appl/dchdc.o: error adding symbols: Bad value
collect2: error: ld returned 1 exit status
make[3]: *** [libR.so] Error 1
make[3]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/main'
make[2]: *** [R] Error 2
make[2]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src/main'
make[1]: *** [R] Error 1
make[1]: Leaving directory `/home/hzambran/SVN/R-devel/trunk/src'
make: *** [R] Error 1
*** Done -- now run 'make install'
Any thoughts what I'm doing wrong ?
Mauricio
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