[R-SIG-Mac] R 2.1.1 available in DarwinPorts
elijah wright
elw at stderr.org
Wed Sep 7 01:52:51 CEST 2005
> Subject: Re: [R-SIG-Mac] R 2.1.1 available in DarwinPorts
>
> I just tried building from darwin ports today, and got the error below
> while bulding R. To confirm, this is for darwin ports on Tiger, right?
> Any help appreciated, looks like there is some kind of symbol conflict.
i got the same error when i tried a build a couple of days ago -- i hadn't
had time to get back to it yet. [and i have a radmind overload of
darwinports that contains a working R (from previous build attempt), so i
wasn't in a hurry to break it either...]
Kjell, are there things we can do to help you? Other than to continue
testing? :)
--elijah
> ---> Fetching gcc34
> ---> Attempting to fetch gcc-3.4.4.tar.bz2 from ftp://ftp.gnu.org/
> gnu//gcc/gcc-3.4.4
> ---> Verifying checksum(s) for gcc34
> ---> Extracting gcc34
> ---> Applying patches to gcc34
> ---> Configuring gcc34
> ---> Building gcc34 with target bootstrap-lean
> ---> Staging gcc34 into destroot
> ---> Packaging tgz archive for gcc34 3.4.4_0+darwin_8
> ---> Installing gcc34 3.4.4_0+darwin_8
> ---> Activating gcc34 3.4.4_0+darwin_8
> ---> Cleaning gcc34
> ---> Fetching gettext
> ---> Attempting to fetch gettext-0.14.5.tar.gz from ftp://
> ftp.gnu.org/gnu/gettext
> ---> Verifying checksum(s) for gettext
> ---> Extracting gettext
> ---> Configuring gettext
> ---> Building gettext with target all
> ---> Staging gettext into destroot
> ---> Packaging tgz archive for gettext 0.14.5_0
> ---> Installing gettext 0.14.5_0
> ---> Activating gettext 0.14.5_0
> ---> Cleaning gettext
> ---> Fetching graphviz
> ---> Attempting to fetch graphviz-2.2.1.tar.gz from http://
> www.graphviz.org/pub/graphviz/ARCHIVE/
> ---> Verifying checksum(s) for graphviz
> ---> Extracting graphviz
> ---> Configuring graphviz
> ---> Building graphviz with target all
> ---> Staging graphviz into destroot
> ---> Packaging tgz archive for graphviz 2.2.1_4
> ---> Installing graphviz 2.2.1_4
> ---> Activating graphviz 2.2.1_4
> ---> Cleaning graphviz
> ---> Fetching texi2html
> ---> Attempting to fetch texi2html-1.76.tar.gz from http://
> savannah.nongnu.org/download/texi2html
> ---> Verifying checksum(s) for texi2html
> ---> Extracting texi2html
> ---> Configuring texi2html
> ---> Building texi2html with target all
> ---> Staging texi2html into destroot
> ---> Packaging tgz archive for texi2html 1.76_3
> ---> Installing texi2html 1.76_3
> ---> Activating texi2html 1.76_3
> ---> Cleaning texi2html
> ---> Fetching texinfo
> ---> Attempting to fetch texinfo-4.8.tar.bz2 from ftp://ftp.gnu.org/
> gnu/texinfo
> ---> Verifying checksum(s) for texinfo
> ---> Extracting texinfo
> ---> Configuring texinfo
> ---> Building texinfo with target all
> ---> Staging texinfo into destroot
> ---> Packaging tgz archive for texinfo 4.8_1
> ---> Installing texinfo 4.8_1
> ---> Activating texinfo 4.8_1
> ---> Cleaning texinfo
> ---> Fetching teTeX
> ---> Attempting to fetch tetex-src-3.0.tar.gz from ftp://
> tug.ctan.org/tex-archive/systems/unix/teTeX/current/distrib/
> ---> Attempting to fetch tetex-texmf-3.0.tar.gz from ftp://
> tug.ctan.org/tex-archive/systems/unix/teTeX/current/distrib/
> ---> Verifying checksum(s) for teTeX
> ---> Extracting teTeX
> ---> Configuring teTeX
> ---> Building teTeX with target all
> ---> Staging teTeX into destroot
> ---> Packaging tgz archive for teTeX 3.0_0
> ---> Installing teTeX 3.0_0
> ---> Activating teTeX 3.0_0
> ---> Cleaning teTeX
> ---> Fetching R
> ---> Attempting to fetch R-2.1.1.tar.gz from http://cran.r-
> project.org/src/base/R-2/
> ---> Verifying checksum(s) for R
> ---> Extracting R
> ---> Configuring R
> ---> Building R with target all
> Error: Target com.apple.build returned: shell command "cd "/opt/local/
> var/db/dports/build/
> file._opt_local_var_db_dports_sources_rsync.rsync.opendarwin.org_dpupdat
> e_dports_math_R/work/R-2.1.1" && make all" returned error 2
> Command output: gcc-3.3 -I../../src/extra/zlib -I../../src/extra/
> bzip2 -I../../src/extra/pcre -no-cpp-precomp -I. -I../../src/include
> -I../../src/include -I/opt/local/include -DHAVE_CONFIG_H -fno-
> common -g -O2 -c startup.c -o startup.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> subassign.c -o subassign.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> subscript.c -o subscript.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> subset.c -o subset.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> summary.c -o summary.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> sysutils.c -o sysutils.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> unique.c -o unique.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> util.c -o util.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> version.c -o version.lo
> gcc-3.3 -I../../src/extra/zlib -I../../src/extra/bzip2 -I../../src/
> extra/pcre -no-cpp-precomp -I. -I../../src/include -I../../src/
> include -I/opt/local/include -DHAVE_CONFIG_H -fno-common -g -O2 -c
> vfonts.c -o vfonts.lo
> g77-dp-3.4 -fno-common -g -O2 -c xxxpr.f -o xxxpr.lo
> gcc-3.3 -dynamiclib -L/opt/local/lib -dynamiclib -install_name
> libR.dylib -compatibility_version 2.1.0 -current_version 2.1.1 -
> headerpad_max_install_names -o libR.dylib Rembedded.lo
> CConverters.lo CommandLineArgs.lo Rdynload.lo Renviron.lo RNG.lo
> apply.lo arithmetic.lo apse.lo array.lo attrib.lo base.lo bind.lo
> builtin.lo character.lo coerce.lo colors.lo complex.lo connections.lo
> context.lo cov.lo cum.lo dcf.lo datetime.lo debug.lo deparse.lo
> deriv.lo dotcode.lo dounzip.lo dstruct.lo duplicate.lo engine.lo
> envir.lo errors.lo eval.lo format.lo fourier.lo gevents.lo gram.lo
> gram-ex.lo graphics.lo identical.lo internet.lo iosupport.lo
> lapack.lo list.lo logic.lo main.lo mapply.lo match.lo memory.lo
> model.lo names.lo objects.lo optim.lo optimize.lo options.lo par.lo
> paste.lo pcre.lo platform.lo plot.lo plot3d.lo plotmath.lo print.lo
> printarray.lo printvector.lo printutils.lo qsort.lo random.lo
> regex.lo registration.lo relop.lo saveload.lo scan.lo seq.lo
> serialize.lo size.lo sort.lo source.lo split.lo sprintf.lo startup.lo
> subassign.lo subscript.lo subset.lo summary.lo sysutils.lo unique.lo
> util.lo version.lo vfonts.lo xxxpr.lo `ls ../appl/*.lo ../nmath/
> *.lo ../unix/*.lo 2>/dev/null` -framework vecLib -L/opt/local/lib/
> gcc-3.4/gcc/powerpc-apple-darwin8.2.0/3.4.4 -L/opt/local/lib/gcc-3.4 -
> lg2c -lgcc_s -lSystemStubs -lSystem ../extra/zlib/libz.a ../extra/
> bzip2/libbz2.a ../extra/pcre/libpcre.a -lintl -liconv -lc -
> lreadline -lm -liconv
> ld: warning prebinding disabled because dependent library: /opt/local/
> lib/gcc-3.4/libg2c.0.dylib is not prebound
> ld: warning multiple definitions of symbol _xerbla_
> print.lo definition of _xerbla_ in section (__TEXT,__text)
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/
> vecLib.framework/Versions/A/libBLAS.dylib(single module) definition
> of _xerbla_
> ld: warning multiple definitions of symbol _locale_charset
> /opt/local/lib/libiconv.dylib(localcharset.o) definition of
> _locale_charset
> /opt/local/lib/libintl.dylib(localcharset.o) definition of
> _locale_charset
> ld: warning multiple definitions of symbol _signgam
> ../nmath/lgamma.lo definition of _signgam in section (__DATA,__common)
> /usr/lib/libSystem.dylib(gamma9.o) definition of _signgam
> ld: Undefined symbols:
> restFP
> saveFP
> /usr/bin/libtool: internal link edit command failed
> make[3]: *** [libR.dylib] Error 1
> make[2]: *** [R] Error 2
> make[1]: *** [R] Error 1
> make: *** [R] Error 1
>
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