Unfortunately with R 1.8.0 it's not as easy, but I succeeded at least partially. Static R works fine (after some tweaking), but --enable-R-shlib fails resp. produces a buggy R. Following are the problems I encountered (in a warning-to-fatal-error sequence):
0)
configure says:
configure: WARNING: I could not determine SHLIB_CXXLDFLAGS
I don't know if this is important, I assume it's not since there should be no C++ code ;)
1) .lo files As Jan already stated in his r-sig-mac post:
then pass them to ld, but more importantly they refuse to handle any file with name foo.lo. Is the "lo" a configure switch I can set to "o"
I think the configure code actually tests whether the compilers can handle -c -o .lo, and have a workaround if this fails.
The configure code looks whether the compile can *create* .lo (xlc can do so), but xlc issues tons of warnings when it's told to *link* .lo files:
[...]
cc: 1501-218 file ../unix/sys-common.lo contains an incorrect file suffix
cc: 1501-218 file ../unix/sys-std.lo contains an incorrect file suffix
cc: 1501-218 file ../unix/sys-unix.lo contains an incorrect file suffix
cc: 1501-218 file ../unix/system.lo contains an incorrect file suffix
I don't know if this has an impact on the linking, but I hope it doesn't since fixing this one is really a pain. It is possible that more recent xlcs turned this warning into an error...
2) this is not AIX related, but nevertheless annoying: make[3]: Entering directory `/tmp/R-1.8.0.build/src/library/base' building package 'base' /bin/sh: /usr/bin/cat: 0403-027 The parameter list is too long.
If unfixed, I get errors like:
Error: couldn't find function "attach"
(fix: put the source directory somewhere down the tree - e.g. I symlinked it to /tmp/R ;)).
3) tilde_expand from readline:
"/.../dce.uni-augsburg.de/fs/home/mathe/sta/urbanesi/work/R-1.8.0/src/ unix/sys-unix.c", line 103.14: 1506-196 (S) Initialization between types "char*" and "int" is not allowed.
fix: add a corresponding declaration for tilde_expand
4) .so vs .a
ld: 0706-006 Cannot find or open library file: -l Rlapack
ld:open(): A file or directory in the path name does not exist.
problem: xlc looks for .a suffix even for shared libraries, butR uses .so - a fix is to symlink libRlapack.so to libRlapack.a (any AIX-savvy folks here that could tell me how to change that behavior in xlc?)
Ok, now such static R works fine.
But when --enable-R-shlib is on then I get:
5) while making libR.so - bad path to R.exp
ld: 0706-003 Cannot find or read import file: /etc/R.exp
ld:accessx(): A file or directory in the path name does not exist.
make[3]: *** [libR.so] Error 255
for some reason /etc/R.exp ends up in the flags instead of $(top_builddir)/etc/R.exp . My guess is that there is also $(R_HOME)/etc/R.exp in Makeconf and $R_HOME is not set when compiling the R shared library.
Setting R_HOME to the build directory indeed fixes this.
6) when linking to libR.a: many duplicate symbols
Every time a module links against libR duplicate symbols are claimed. For example when compiling R_X11.so:
xlc -Wl,-bM:SRE -Wl,-H512 -Wl,-T512 -Wl,-bnoentry -Wl,-bexpall -Wl,-bI:../../../etc/R.exp -L/usr/local/lib -o R_X11.so dataentry.lo devX11.lo rotated.lo rbitmap.lo -lSM -lICE -lX11 -L../../../bin -lR -lbz2 -lreadline -ldl -lncurses -lm -lc
xlc: 1501-218 file dataentry.lo contains an incorrect file suffix
xlc: 1501-218 file devX11.lo contains an incorrect file suffix
xlc: 1501-218 file rotated.lo contains an incorrect file suffix
xlc: 1501-218 file rbitmap.lo contains an incorrect file suffix
ld: 0711-224 WARNING: Duplicate symbol: p_xargc
ld: 0711-224 WARNING: Duplicate symbol: p_xargv
ld: 0711-224 WARNING: Duplicate symbol: p_xrcfg
ld: 0711-224 WARNING: Duplicate symbol: p_xrc
ld: 0711-224 WARNING: Duplicate symbol: end
ld: 0711-224 WARNING: Duplicate symbol: .Rf_error
ld: 0711-224 WARNING: Duplicate symbol: Rf_error
ld: 0711-224 WARNING: Duplicate symbol: .Rf_warning
ld: 0711-224 WARNING: Duplicate symbol: Rf_warning
ld: 0711-224 WARNING: Duplicate symbol: .Rf_lengthgets
ld: 0711-224 WARNING: Duplicate symbol: Rf_lengthgets
ld: 0711-224 WARNING: Duplicate symbol: .R_Reprotect
ld: 0711-224 WARNING: Duplicate symbol: R_Reprotect
ld: 0711-224 WARNING: Duplicate symbol: .Rf_mkChar
ld: 0711-224 WARNING: Duplicate symbol: Rf_mkChar
ld: 0711-224 WARNING: Duplicate symbol: .SET_STRING_ELT
ld: 0711-224 WARNING: Duplicate symbol: SET_STRING_ELT
ld: 0711-224 WARNING: Duplicate symbol: .Rf_isNull
ld: 0711-224 WARNING: Duplicate symbol: Rf_isNull
[...]
ld: 0711-224 WARNING: Duplicate symbol: .Rprintf
ld: 0711-224 WARNING: Duplicate symbol: Rprintf
ld: 0711-345 Use the -bloadmap or -bnoquiet option to obtain more information.
with -bnoquiet I get:
p_xargc crt0main.s(/lib/crt0.o)
** Duplicate ** {../../../bin/libR.a}
[...]
.Rf_error {../../../bin/libR.a}
** Duplicate ** ../../../etc/R.exp{.}
Rf_error {../../../bin/libR.a}
** Duplicate ** ../../../etc/R.exp{.}
[...]7) now, when such R is run, things go wrong. Just after starting R this appears:
Error in open.connection(con, "rb") : unable to open connection
In addition: Warning message:
cannot open compressed file `/.../dce.uni-augsburg.de/fs/home/mathe/sta/urbanesi/work/R- 1.8.0.build/library/methods/R/all.rda'
doing anything produces more warnings:
> 1:10/2
[1] 0.5 1.0 1.5 2.0 2.5 3.0 3.5 4.0 4.5 5.0
Warning message:
package methods in options("defaultPackages") was not foundback to 6) - Removing -Wl:-bI...R.exp from the linking removes all R-related warnings, but then something strange happens:
building package 'methods' mkdir -p -- ../../../library/methods/R all.R is unchanged mkdir -p -- ../../../library/methods/man Target "Makedeps" is up to date. mkdir -p -- ../../../../library/methods/libs dumping R code in package 'methods' Saving namespace image ... /bin/sh: 26442 Segmentation fault(coredump) make: 1254-004 The error code from the last command is 139.
Any idea how to debug this or what goes on with the R.exp??
Simon
----
R 1.8.0 (release tar-ball)
System: AIX 4.3.3.0
compiler: VisualAge C++/C for AIX Version 5.0.2.0, XL Fortran for AIX 7.1.0.0
call to configure:
CC=xlc CXX=xlc /.../dce.uni-augsburg.de/fs/home/mathe/sta/urbanesi/work/R-1.8.0/ configure --prefix=${HOME}/aix --enable-R-shlib
configure output: R is now configured for powerpc-ibm-aix4.3.3.0
Source directory: /.../dce.uni-augsburg.de/fs/home/mathe/sta/urbanesi/work/R-1.8.0
Installation directory: /.../dce.uni-augsburg.de/fs/home/mathe/sta/urbanesi/aix
C compiler: xlc -g C++ compiler: xlc -g Fortran compiler: f77 -g
Interfaces supported: X11 External libraries: readline, BLAS(ESSL) Additional capabilities: bzip2, PCRE Options enabled: shared library, R profiling
Recommended packages: yes
configure: WARNING: I could not determine SHLIB_CXXLDFLAGS
--- Simon Urbanek Department of computer oriented statistics and data analysis University of Augsburg Universit�tsstr. 14 86135 Augsburg Germany
Tel: +49-821-598-2236 Fax: +49-821-598-2200
[EMAIL PROTECTED] http://simon.urbanek.info
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