[R] R-2.3.1 --enable-R-shlib
Francis De Brabandere
francis.debrabandere at cropdesign.com
Thu Jul 13 18:58:09 CEST 2006
Hi,
I've upgraded our server to the latest R version, everything went ok
until I wanted to install RServe for our java clients.
RServe needs the shared library which can be compiled using configure
--enable-R-shlib. All went ok but after running make I got this error:
gcc -shared -L/usr/local/lib64 -o libR.so Rembedded.o CConverters.o
CommandLineArgs.o Rdynload.o Renviron.o RNG.o apply.o arithmetic.o
apse.o array.o attrib.o base.o bind.o builtin.o character.o coerce.o
colors.o complex.o connections.o context.o cov.o cum.o dcf.o datetime.o
debug.o deparse.o deriv.o dotcode.o dounzip.o dstruct.o duplicate.o
engine.o envir.o errors.o eval.o format.o fourier.o gevents.o gram.o
gram-ex.o graphics.o identical.o internet.o iosupport.o lapack.o list.o
localecharset.o logic.o main.o mapply.o match.o memory.o model.o names.o
objects.o optim.o optimize.o options.o par.o paste.o pcre.o platform.o
plot.o plot3d.o plotmath.o print.o printarray.o printvector.o
printutils.o qsort.o random.o regex.o registration.o relop.o rlocale.o
saveload.o scan.o seq.o serialize.o size.o sort.o source.o split.o
sprintf.o startup.o subassign.o subscript.o subset.o summary.o
sysutils.o unique.o util.o version.o vfonts.o xxxpr.o `ls ../appl/*.o
../nmath/*.o ../unix/*.o 2>/dev/null` -lg2c -lm -lgcc_s
../extra/zlib/libz.a ../extra/bzip2/libbz2.a ../extra/pcre/libpcre.a
-lreadline -ldl -lm
/usr/lib64/gcc-lib/x86_64-suse-linux/3.3.4/../../../../x86_64-suse-linux/bin/ld:
CConverters.o: relocation R_X86_64_32S against `R_FunTab' can not be
used when making a shared object; recompile with -fPIC
CConverters.o: could not read symbols: Bad value
collect2: ld returned 1 exit status
we tried setting the -fPIC using the export CFLAGS=-fPIC but that didn't
help (more output but same bug later on)
Thanks in advance,
Francis
here is the full log + more info:
uname -a
Linux stat 2.6.8-24-smp #1 SMP Wed Oct 6 09:16:23 UTC 2004 x86_64 x86_64
x86_64 GNU/Linux
.......(last part of configure)....
R is now configured for x86_64-unknown-linux-gnu
Source directory: .
Installation directory: /usr/local
C compiler: gcc -g -O2 -std=gnu99
Fortran 77 compiler: g77 -g -O2
C++ compiler: g++ -g -O2
Fortran 90/95 compiler: g77 -g -O2
Interfaces supported: X11
External libraries: readline
Additional capabilities: iconv, MBCS, NLS
Options enabled: shared library, R profiling
Recommended packages: yes
configure: WARNING: you cannot build PDF versions of all the help pages
configure: WARNING: I could not determine a browser
configure: WARNING: I could not determine a PDF viewer
[1806][root at stat:/opt/R]$ make
make[1]: Entering directory `/opt/R-2.3.1/m4'
make[1]: Nothing to be done for `R'.
make[1]: Leaving directory `/opt/R-2.3.1/m4'
make[1]: Entering directory `/opt/R-2.3.1/tools'
make[1]: Nothing to be done for `R'.
make[1]: Leaving directory `/opt/R-2.3.1/tools'
make[1]: Entering directory `/opt/R-2.3.1/doc'
make[2]: Entering directory `/opt/R-2.3.1/doc/html'
make[3]: Entering directory `/opt/R-2.3.1/doc/html/search'
make[3]: Leaving directory `/opt/R-2.3.1/doc/html/search'
make[2]: Leaving directory `/opt/R-2.3.1/doc/html'
make[2]: Entering directory `/opt/R-2.3.1/doc/manual'
make[2]: Nothing to be done for `R'.
make[2]: Leaving directory `/opt/R-2.3.1/doc/manual'
make[1]: Leaving directory `/opt/R-2.3.1/doc'
make[1]: Entering directory `/opt/R-2.3.1/etc'
make[1]: Leaving directory `/opt/R-2.3.1/etc'
make[1]: Entering directory `/opt/R-2.3.1/share'
make[1]: Leaving directory `/opt/R-2.3.1/share'
make[1]: Entering directory `/opt/R-2.3.1/src'
make[2]: Entering directory `/opt/R-2.3.1/src/scripts'
creating src/scripts/R.fe
make[3]: Entering directory `/opt/R-2.3.1/src/scripts'
make[3]: Leaving directory `/opt/R-2.3.1/src/scripts'
make[2]: Leaving directory `/opt/R-2.3.1/src/scripts'
make[2]: Entering directory `/opt/R-2.3.1/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 `/opt/R-2.3.1/src/include/R_ext'
make[3]: Nothing to be done for `R'.
make[3]: Leaving directory `/opt/R-2.3.1/src/include/R_ext'
make[2]: Leaving directory `/opt/R-2.3.1/src/include'
make[2]: Entering directory `/opt/R-2.3.1/src/extra'
make[3]: Entering directory `/opt/R-2.3.1/src/extra/bzip2'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/bzip2'
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/bzip2'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/bzip2'
make[4]: `libbz2.a' is up to date.
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/bzip2'
make[3]: Leaving directory `/opt/R-2.3.1/src/extra/bzip2'
make[3]: Entering directory `/opt/R-2.3.1/src/extra/pcre'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/pcre'
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/pcre'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/pcre'
make[4]: `libpcre.a' is up to date.
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/pcre'
make[3]: Leaving directory `/opt/R-2.3.1/src/extra/pcre'
make[3]: Entering directory `/opt/R-2.3.1/src/extra/zlib'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/zlib'
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/zlib'
make[4]: Entering directory `/opt/R-2.3.1/src/extra/zlib'
make[4]: `libz.a' is up to date.
make[4]: Leaving directory `/opt/R-2.3.1/src/extra/zlib'
make[3]: Leaving directory `/opt/R-2.3.1/src/extra/zlib'
make[2]: Leaving directory `/opt/R-2.3.1/src/extra'
make[2]: Entering directory `/opt/R-2.3.1/src/appl'
make[3]: Entering directory `/opt/R-2.3.1/src/appl'
make[3]: Leaving directory `/opt/R-2.3.1/src/appl'
make[3]: Entering directory `/opt/R-2.3.1/src/appl'
make[3]: `stamp-lo' is up to date.
make[3]: Leaving directory `/opt/R-2.3.1/src/appl'
make[2]: Leaving directory `/opt/R-2.3.1/src/appl'
make[2]: Entering directory `/opt/R-2.3.1/src/nmath'
make[3]: Entering directory `/opt/R-2.3.1/src/nmath'
make[3]: Leaving directory `/opt/R-2.3.1/src/nmath'
make[3]: Entering directory `/opt/R-2.3.1/src/nmath'
make[3]: `stamp-lo' is up to date.
make[3]: Leaving directory `/opt/R-2.3.1/src/nmath'
make[2]: Leaving directory `/opt/R-2.3.1/src/nmath'
make[2]: Entering directory `/opt/R-2.3.1/src/unix'
make[3]: Entering directory `/opt/R-2.3.1/src/unix'
make[3]: Leaving directory `/opt/R-2.3.1/src/unix'
make[3]: Entering directory `/opt/R-2.3.1/src/unix'
make[3]: `stamp-lo' is up to date.
make[3]: Leaving directory `/opt/R-2.3.1/src/unix'
make[2]: Leaving directory `/opt/R-2.3.1/src/unix'
make[2]: Entering directory `/opt/R-2.3.1/src/main'
make[3]: Entering directory `/opt/R-2.3.1/src/main'
make[3]: Leaving directory `/opt/R-2.3.1/src/main'
make[3]: Entering directory `/opt/R-2.3.1/src/main'
gcc -shared -L/usr/local/lib64 -o libR.so Rembedded.o CConverters.o
CommandLineArgs.o Rdynload.o Renviron.o RNG.o apply.o arithmetic.o
apse.o array.o attrib.o base.o bind.o builtin.o character.o coerce.o
colors.o complex.o connections.o context.o cov.o cum.o dcf.o datetime.o
debug.o deparse.o deriv.o dotcode.o dounzip.o dstruct.o duplicate.o
engine.o envir.o errors.o eval.o format.o fourier.o gevents.o gram.o
gram-ex.o graphics.o identical.o internet.o iosupport.o lapack.o list.o
localecharset.o logic.o main.o mapply.o match.o memory.o model.o names.o
objects.o optim.o optimize.o options.o par.o paste.o pcre.o platform.o
plot.o plot3d.o plotmath.o print.o printarray.o printvector.o
printutils.o qsort.o random.o regex.o registration.o relop.o rlocale.o
saveload.o scan.o seq.o serialize.o size.o sort.o source.o split.o
sprintf.o startup.o subassign.o subscript.o subset.o summary.o
sysutils.o unique.o util.o version.o vfonts.o xxxpr.o `ls ../appl/*.o
../nmath/*.o ../unix/*.o 2>/dev/null` -lg2c -lm -lgcc_s
../extra/zlib/libz.a ../extra/bzip2/libbz2.a ../extra/pcre/libpcre.a
-lreadline -ldl -lm
/usr/lib64/gcc-lib/x86_64-suse-linux/3.3.4/../../../../x86_64-suse-linux/bin/ld:
CConverters.o: relocation R_X86_64_32S against `R_FunTab' can not be
used when making a shared object; recompile with -fPIC
CConverters.o: could not read symbols: Bad value
collect2: ld returned 1 exit status
make[3]: *** [libR.so] Error 1
make[3]: Leaving directory `/opt/R-2.3.1/src/main'
make[2]: *** [R] Error 2
make[2]: Leaving directory `/opt/R-2.3.1/src/main'
make[1]: *** [R] Error 1
make[1]: Leaving directory `/opt/R-2.3.1/src'
make: *** [R] Error 1
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