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Comments on the R-2.0.0 release (PR#7351)

3 messages · beebe@math.utah.edu, Dirk Eddelbuettel, stefano iacus

Original
beebe@math.utah.edu
# 
Builds of the R-2.0.0 release have been considerably more successful
at my site than previous releases.  I now have it installed on these
platforms:

	Apple PowerPC G3 267MHz	GNU/Linux 2.4.19-4a (Yellow Dog Linux release 2.3 (Dayton))
	Compaq Alpha Sierra	OSF/1 5.1
	Compaq/DEC Alpha	OSF/1 4.0F
	Intel Itanium-2		GNU/Linux Red Hat Linux Advanced Server release 2.1AS (Derry)
	Intel Pentium II	FreeBSD 4.4-RELEASE #0
	Intel Pentium III	FreeBSD 5.0
	Intel Pentium III	GNU/Linux 2.4.18-26.8.0smp (Red Hat 8.0 (Psyche))
	Intel Pentium III	GNU/Linux 2.4.21-20.ELsmp (Red Hat Enterprise Linux WS release 3 (Taroon Update 3))
	Intel Pentium III	NetBSD 1.6
	Intel Pentium III	OpenBSD 3.2
	Intel Pentium III	Solaris 9 x86
	SGI Origin 200		IRIX 6.5
	Sun SPARC		GNU/Linux 2.2.19-6.2.1 (Red Hat 6.2)
	Sun SPARC		Solaris 2.7
	Sun SPARC		Solaris 2.8
	Sun SPARC		Solaris 2.9

However, builds initially failed on several of these systems because
of errors like this:

	/usr/bin/ld: cannot find -lX11

On these systems, I was able to restart the build with

	make LDFLAGS=-L/usr/X11R6/lib

and have it complete successfully.  I've recently seen some other
packages that failed to compile for the same reason: the list of
standard locations that is searched at configure time for X11
libraries is out-of-date.  The R-2.0.0 configure.ac script has this
snippet:

	for dir in /usr/bin/X11 /usr/X11R6/bin /usr/openwin/bin; do
	  r_xtra_path="${r_xtra_path}${PATH_SEPARATOR}${dir}"
	done

However, it does not seem to have an analogue for the corresponding
lib directory.

Also, on some systems, I had to switch from using the native C/C++
compilers to GNU gcc/g++.

R-2.0.0 has failed to build on these systems:

	Apple PowerPC G4 1.4GHz	Darwin 7.3.0 (MacOS 10.3.2 (7D26))
	SGI Indy-200		GNU/Linux Gentoo 1.4.16
	IBM PowerPC		AIX 4.2

On the MacOS 10 system, builds with the native cc (== gcc 3.3
20030304) and with the latest gcc-3.4.3 fail like this:

	gcc -dynamiclib -L/usr/local/lib -dynamiclib -install_name libR.dylib \
		-compatibility_version 2.0.0 -current_version 2.0.0 \
		-headerpad_max_install_names -framework Carbon -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 \
		devPS.lo devPicTeX.lo deparse.lo deriv.lo devices.lo dotcode.lo \
		dounzip.lo dstruct.lo duplicate.lo engine.lo envir.lo errors.lo \
		eval.lo format.lo fourier.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` -lblas \
		-L/usr/local/lib \
		-L/export/local/powerpc-macosx/bin/../lib/gcc/powerpc-apple-darwin7.5.0/3.4.2 \
		-L/export/local/powerpc-macosx/bin/../lib/gcc \
		-L/usr/local/lib/gcc/powerpc-apple-darwin7.5.0/3.4.2 \
		-L/export/local/powerpc-macosx/bin/../lib/gcc/powerpc-apple-darwin7.5.0/3.4.2/../../..  \
		-L/usr/local/lib/gcc/powerpc-apple-darwin7.5.0/3.4.2/../../.. -lfrtbegin \
		-lg2c -lgcc_s -lSystem ../extra/zlib/libz.a ../extra/bzip2/libbz2.a \
		../extra/pcre/libpcre.a -lreadline -lcc_dynamic -lncurses -lm \
		-lcc_dynamic \
	gcc: Carbon: No such file or directory

On the GNU/Linux MIPS system, there is as yet no working Fortran
compiler, and f2c fails to build there, so R cannot be expected to
run.

On the IBM AIX system, I get this failure:

	gcc -Wl,-bM:SRE -Wl,-H512 -Wl,-T512 -Wl,-bnoentry -Wl,-bexpall \
		-Wl,-bI:../../../etc/R.exp -Wl,-L/usr/local/lib \
		-Wl,-bE:../../../etc/Rlapack.exp -o libRlapack.so dlamc.lo \
		dlapack0.lo dlapack1.lo dlapack2.lo dlapack3.lo cmplx.lo \
		cmplxblas.lo \
		-L/usr/local/lib/gcc-lib/powerpc-ibm-aix4.2.1.0/2.95.3 \
		-L/usr/local/powerpc-ibm-aix4.2.1.0/lib -L/usr/local/lib -lg2c \
		-lm \
		/usr/local/lib/gcc-lib/powerpc-ibm-aix4.2.1.0/2.95.3/libgcc.a \
		-lg
	ld: 0711-224 WARNING: Duplicate symbol: .lsame_
	ld: 0711-224 WARNING: Duplicate symbol: lsame_
	ld: 0711-345 Use the -bloadmap or -bnoquiet option to obtain more information.
	make[4]: Leaving directory `/local/build/R-2.0.0/src/modules/lapack'

	...

	gcc -Wl,-bM:SRE -Wl,-H512 -Wl,-T512 -Wl,-bnoentry -Wl,-bexpall \
		-Wl,-bI:../../../etc/R.exp -Wl,-L/usr/local/lib -o lapack.so \
		-Wl,-bI:../../../etc/Rlapack.exp Lapack.lo rgeev.lo rsyev.lo \
		-L../../../lib -lRlapack \
		-L/usr/local/lib/gcc-lib/powerpc-ibm-aix4.2.1.0/2.95.3 \
		-L/usr/local/powerpc-ibm-aix4.2.1.0/lib -L/usr/local/lib -lg2c -lm \
		/usr/local/lib/gcc-lib/powerpc-ibm-aix4.2.1.0/2.95.3/libgcc.a -lg \
		-lreadline -ldl -lncurses -lm -lc \
		ld: 0706-006 Cannot find or open library file: -l Rlapack \
		ld:open(): No such file or directory
		collect2: ld returned 255 exit status
		make[4]: Leaving directory `/local/build/R-2.0.0/src/modules/lapack'

Shared libraries (*.so) are uncommon on AIX 4.2; there are none at all
in /usr/lib or /lib or /usr/lpp/X11/lib/, and only a few locally-added
ones in /usr/local/lib.

-------------------------------------------------------------------------------
- Nelson H. F. Beebe                    Tel: +1 801 581 5254                  -
- University of Utah                    FAX: +1 801 581 4148                  -
- Department of Mathematics, 110 LCB    Internet e-mail: beebe@math.utah.edu  -
- 155 S 1400 E RM 233                       beebe@acm.org  beebe@computer.org -
- Salt Lake City, UT 84112-0090, USA    URL: http://www.math.utah.edu/~beebe  -
Dirk Eddelbuettel
# 
Nelson,

That is an impressive list of successes.
On Mon, Nov 08, 2004 at 07:41:11PM +0100, beebe@math.utah.edu wrote:
[...]
[...]
We have that working under Debian using our standard g77 builds. Logs for
mips (and mipsel) since R 1.4.0:

   http://buildd.debian.org/build.php?pkg=r-base&arch=mips
   http://buildd.debian.org/build.php?pkg=r-base&arch=mipsel

I could of course be off-base here if that particular Indy model uses a
different cpu -- apologies if that is the case.

Without the trailing &arch=mips(el), it will list logs for all arches.

Dirk
stefano iacus
#
On Nov 8, 2004, at 7:41 PM, beebe@math.utah.edu wrote:

            

      
      
      
    

        
can you please tell us if you gcc-3.4.3 comes from? -framework Carbon,  
which causes the error apparently, should work (and it works for  
gcc-3.5).

gcc --v  ?

would be nice to know.
stefano