[R] rpart on Alpha under OSF
albrecht.gebhardt at uni-klu.ac.at
Thu Dec 23 19:35:54 CET 1999
On Thu, 23 Dec 1999, F.Tusell wrote:
> Running on an Alpha machine which reports (uname -a)
> OSF1 bsdx01.bs.ehu.es V4.0 878 alpha
> and using the binary distribution put together by Albrecht Gebhardt
> (in http://cran.at.r-project.org/bin/osf/osf4.0/tar/alpha_ev5/)
this is a little bit outdated (0.65.0), I should make a new tar snapshot
of 0.90.1, but I guess it wouldn't solve your segfault problem.
Sorry but I have no time to test all parts of this binary package, I guess
there is more then this one alpha specific bug hidden somewhere.
Anyway you could try to use gdb to locate the error.
First get the R sources + rpart sources somewhere in your homedir.
Start R (could even be in (X)emacs with ESS), type "library(rpart)",
get its process id (ps axuw| grep R.X11),
start "gdb path_to_/R.X11" (preferably in emacs or Xemacs via alt-x gdb),
type the gdb commands
eventually set breakpoints with "break subroutinename" and then
Now type your R commands and watch gdb where you are when the crash
occurs. (e.g. with "backtrace", or "list")
> obtain core dumps whenever I try to use package rpart. I have R
> REMOVE'd the rpart package, downloaded the source rpart_1.0-7.tar from
> CRAN and attempted a compilation. Everything works fine until the
> linking step, when I get:
> f77 -shared -o /users/etptupaf/R/library/rpart/libs/rpart.so anova.o anovapred.o branch.o bsplit.o choose_surg.o fix_cp.o free_tree.o gini.o graycode.o insert_split.o make_cp_list.o make_cp_table.o mysort.o nodesplit.o partition.o poisson.o poissonpred.o pred_rpart.o rpart.o rpcountup.o rplabel.o rpmatrix.o rundown.o rundown2.o s_to_rp.o s_xpred.o surrogate.o xval.o -lUfor -lfor -lFutil -lm -lots -lm
> Warning: Unresolved:
> What is S_alloc? Do I have to install the full source for R in order
> to compile a package? I do not have root rights on this machine, which
This is only a warning, it could be supressed with the linker option
"-expect_unresolved *", but it makes no difference for the result.
It simply indicates that S_alloc (subroutine in R.X11) gets called from
You don't need the complete R sources, even for the gdb experiment above.
But may it is better to have them, to be able to "step" through the
complete code within gdb.
A new alpha binary tar file (0.90.1) should appear soon on CRAN.
| Albrecht Gebhardt Tel.: (++43 463) 2700/832 |
| Institut fuer Mathematik Fax : (++43 463) 2700/834 |
| Universitaet Klagenfurt mailto:albrecht.gebhardt at uni-klu.ac.at |
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| A-9020 Klagenfurt, Austria |
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