[Rd] akima core dumps on loading (PR#521)

[p.dalgaard@biostat.ku.dk]

Massimo Santini <santini@dsi.unimi.it> writes:

> > Hmm. Doesn't happen here. (BTW: Remember to include as much
> > information about your system as you can think of. It's not obvious
> > whether you're running RedHat or SuSE for instance and in what
> > version.) 
> 
> You are perfectly right. My system is an updated RedHat 6.2.

Same here...

> > > stat("/usr/lib/R/library/akima/libs/akima.so", {st_mode=S_IFREG|0755,
> > > st_size=289367, ...}) = 0
> > > stat("/usr/lib/R/library/base/libs/akima.so", 0xbfffdb60) = -1 ENOENT (No such
> > > file or directory)
> > 
> > This would seem to be the problem: the dynamic library isn't there.
> > Did you get any error messages while compiling the package? (Except
> > for "...might be used uninitialized..." of which there are quite a few
> > here too).
> 
> Non errors during the installation phase. The akima.so library is in 
> 
> 	/usr/lib/R/library/akima/libs/akima.so
> 
> where it should be (with correct premissions), but is not in
> 
> 	/usr/lib/R/library/base/libs/akima.so
> 
> (the dir /usr/lib/R/library/base/libs is missing, to be precise).

Oh. Didn't see that. Then that part is OK. Sorry.

> Have you some hint about what to do now?

Hmmm. Interesting: I can provoke the crash on *my other* RedHat6.2
computer (the one still running the egcs compiler). My stack trace says

#0  _dl_lookup_symbol (
    undef_name=0xcbf203b4 <Address 0xcbf203b4 out of bounds>,
    ref=0xbfffb234, 
    symbol_scope=0x81d3cac, 
    reference_name=0x81d3a60
    "/usr/local/src/misc/r-release/BUILD/library/akima/libs/akima.so",
    reloc_type=64) at ../sysdeps/generic/dl-hash.h:31
#1  0x400096ad in _dl_relocate_object (l=0x81d3aa8, scope=0x81d3cac, lazy=0, 
    consider_profiling=0) at ../sysdeps/i386/dl-machine.h:326
#2  0x40255be4 in dl_open_worker (a=0xbfffb3a0) at dl-open.c:182
#3  0x4000ac3b in _dl_catch_error (errstring=0xbfffb39c, 
    operate=0x40255990 <dl_open_worker>, args=0xbfffb3a0) at dl-error.c:141
#4  0x40255d3d in _dl_open (
    file=0xbfffc51c 
"/usr/local/src/misc/r-release/BUILD/library/akima/libs/akima.so",
mode=2, caller=0xbfffb39c) at dl-open.c:232
#5  0x401323d3 in dlopen_doit (a=0xbfffb4b0) at dlopen.c:41
#6  0x4000ac3b in _dl_catch_error (errstring=0x40134080, 
    operate=0x401323a8 <dlopen_doit>, args=0xbfffb4b0) at
dl-error.c:141
#7  0x401328b9 in _dlerror_run (operate=0x401323a8 <dlopen_doit>, 
    args=0xbfffb4b0) at dlerror.c:125
#8  0x40132393 in __dlopen_check (
    file=0xbfffc51c
"/usr/local/src/misc/r-release/BUILD/library/akima/libs/akima.so",
mode=2) at dlopen.c:53
#9  0x80d9cc3 in AddDLL (
    path=0xbfffc51c
"/usr/local/src/misc/r-release/BUILD/library/akima/libs/akim
a.so", asLocal=1, now=1) at ../../../R/src/unix/dynload.c:207


Looks like it is happening during the dynamic linking itself. Doesn't
look nice. (But installing gcc 2.95.2 might fix your problem.)

[diverted back to r-bugs]

-- 
   O__  ---- Peter Dalgaard             Blegdamsvej 3  
  c/ /'_ --- Dept. of Biostatistics     2200 Cph. N   
 (*) \(*) -- University of Copenhagen   Denmark      Ph: (+45) 35327918
~~~~~~~~~~ - (p.dalgaard@biostat.ku.dk)             FAX: (+45) 35327907

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