[R] installation question/problem

[Peter Dalgaard]

DW <dwinner-lists at att.net> writes:

> Peter Dalgaard wrote:
> 
> >DW <dwinner-lists at att.net> writes:
> >
> >
> >>Hello,
> >>
> >> Can anybody tell me why I am getting the error below when I run
> >> "make check" and if it has any consequences I may regret later?
> >>
> >>I run:
> >>
> >>#  ./configure --enable-R-shlib
> >># make
> >># make check
> >># make install
> >>
> >>
> >> configure, make and make install all work without errors, and it
> >> seems to install ok, and I even test the R binary after install, so
> >> I guess it's working. But I want to make sure. I'm not going to be
> >> using R, but I'm the net admin who has been tasked with installing
> >> it our servers, so I don't want any nasty surprises.
> >>
> >> I wonder if it's possible that I'm missing libraries because I'm
> >> not running X on the servers?
> >>
> >>This is:
> >>FreeBSD 5.4 p8
> >>R-2.2.1
> >>
> >>
> >>make check output:
> >>
> >>(snip)
> >>.....
> >>running code in 'grDevices-Ex.R' ... OK
> >>comparing 'grDevices-Ex.Rout' to 'grDevices-Ex.Rout.prev' ... OK
> >>running code in 'graphics-Ex.R' ... OK
> >>comparing 'graphics-Ex.Rout' to 'graphics-Ex.Rout.prev' ... OK
> >>running code in 'stats-Ex.R' ...*** Error code 1
> >>
> > Ouch.
> >
> >Please look for stats-Ex.Rout.fail at tell us what is in it (you
> >should find it in tests/Examples in your builddir, interesting stuff
> >should be towards the end of the file).
> >
> >
> Here is what I found:
> 
>  > ## using the nl2sol algorithm
>  > fm4DNase1 <- nls( density ~ Asym/(1 + exp((xmid - log(conc))/scal)),
> +                   data = DNase1,
> +                   start = list(Asym = 3, xmid = 0, scal = 1),
> +                   trace = TRUE, algorithm = "port")
>   0      0.00000:  3.00000  0.00000  1.00000
> Error in nls(density ~ Asym/(1 + exp((xmid - log(conc))/scal)), data =
> DNase1,  :
>         Convergence failure: See PORT documentation.  Code (27)
> Execution halted
> 
> 
> Thanks,
> DW

Hmm. Faint bell ringing:

We had a thread in R-core involving that error message (code 27 too)
in a different context, back in August. It could indicate that you are
tickling an intermittent bug in nlminb. Are you any good with a
debugger?

-- 
   O__  ---- Peter Dalgaard             Øster Farimagsgade 5, Entr.B
  c/ /'_ --- Dept. of Biostatistics     PO Box 2099, 1014 Cph. K
 (*) \(*) -- University of Copenhagen   Denmark          Ph:  (+45) 35327918
~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk)                  FAX: (+45) 35327907