#18229: Upgrade R to 3.2.0
-------------------------------------+-------------------------------------
Reporter: charpent | Owner: charpent
Type: enhancement | Status: needs_work
Priority: minor | Milestone: sage-6.7
Component: packages: | Resolution:
standard | Merged in:
Keywords: r-project | Reviewers: Vincent Delecroix
Authors: Emmanuel | Work issues: Fix detection of
Charpentier | bzlib
Report Upstream: N/A | Commit:
Branch: | ab208a4e69834c786a2f0d4ff5a2626776db4d62
u/charpent/upgrade_r_to_3_1_3 | Stopgaps:
Dependencies: #18254 |
-------------------------------------+-------------------------------------
Comment (by leif):
With `R_CONFIGURE=--without-system-bzlib`, I'm getting
{{{
gcc-5.1 -shared -fopenmp
-L/data/Sage/release/devel/sage-6.7.beta3-gcc-5.1.0/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/bzip2/libbz2.a
../extra/pcre/libpcre.a ../extra/tre/libtre.a ../extra/xz/liblzma.a
-lf77blas -latlas -lgfortran -lm -lquadmath -lreadline -lrt -ldl -lm
make[4]: Entering directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
mkdir -p -- /tmp/sage-build-tmp/r-3.2.0.p0/src/bin/exec
mkdir -p -- /tmp/sage-build-tmp/r-3.2.0.p0/src/lib
make[4]: Leaving directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
make[3]: Leaving directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
make[3]: Entering directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
gcc-5.1 -I../../src/extra/bzip2 -I../../src/extra/pcre -I../../src/extra
-I../../src/extra/xz/api -I. -I../../src/include -I../../src/include
-I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -c Rmain.c -o
Rmain.o
gcc-5.1 -Wl,--export-dynamic -fopenmp -L../../lib
-L/data/Sage/release/devel/sage-6.7.beta3-gcc-5.1.0/local/lib/ -o R.bin
Rmain.o -lR
../../lib/libR.so: undefined reference to `inflateReset'
../../lib/libR.so: undefined reference to `inflateEnd'
../../lib/libR.so: undefined reference to `compress'
../../lib/libR.so: undefined reference to `deflate'
../../lib/libR.so: undefined reference to `inflateInit2_'
../../lib/libR.so: undefined reference to `inflate'
../../lib/libR.so: undefined reference to `crc32'
../../lib/libR.so: undefined reference to `deflateEnd'
../../lib/libR.so: undefined reference to `zlibVersion'
../../lib/libR.so: undefined reference to `deflateInit2_'
../../lib/libR.so: undefined reference to `uncompress'
collect2: error: ld returned 1 exit status
Makefile:153: recipe for target 'R.bin' failed
make[3]: *** [R.bin] Error 1
make[3]: Leaving directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
Makefile:143: recipe for target 'R' failed
make[2]: *** [R] Error 2
make[2]: Leaving directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src/main'
Makefile:28: recipe for target 'R' failed
make[1]: *** [R] Error 1
make[1]: Leaving directory '/tmp/sage-build-tmp/r-3.2.0.p0/src/src'
Makefile:59: recipe for target 'R' failed
make: *** [R] Error 1
Error building R.
}}}
--
Ticket URL: <http://trac.sagemath.org/ticket/18229#comment:51>
Sage <http://www.sagemath.org>
Sage: Creating a Viable Open Source Alternative to Magma, Maple, Mathematica,
and MATLAB
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