[R] core dump during make check when building 64-bit R on Solaris8/9

[Prof Brian Ripley]

We know of at least two builds which successfully used libsunperf, one 
(mine) with Studio ONE 7 and one with 9.  So this may well be a problem 
with your particular compiler suite.

On Wed, 1 Dec 2004, CHAN Chee Seng wrote:

> Hi,
>
> After reading some of the posting in this list, I came across this
> posting from:
>
> From: Peter Dalgaard <p.dalgaard_at_biostat.ku.dk>
> Date: Fri 29 Oct 2004 - 08:02:40 EST
> Replying to Re: [R] Errors during make check
>
> He described a problem similar to mine, that build 64-bit R (I am
> building R version 2.0.1) with sunperf library gives a core dump during
> make check.  So I configured my build without the sunperf (BLAS and
> lapack) library.  My configure statement looks like this:
>
> ./configure --prefix=/usr/local/R-2.0.1
> --with-tcl-config=/usr/sfw/lib/tclCo
> nfig.sh --with-tk-config=/usr/sfw/lib/tkConfig.sh --without-blas
>
> The "make check" ran without a problem after this.
>
> I hope that the sun compiler people can look into this and see if there
> is a problem with the sunperf library.  Maybe Peter Dalgaard ha further
> insights into this?  Thanks.
>
> Regards,
> Chee Seng
>
>
> -----Original Message-----
> From: r-help-bounces at stat.math.ethz.ch
> [mailto:r-help-bounces at stat.math.ethz.ch] On Behalf Of CHAN Chee Seng
> Sent: Monday, November 29, 2004 6:13 PM
> To: r-help at stat.math.ethz.ch
> Subject: [R] core dump during make check when building 64-bit R on
> Solaris8/9
>
> Hi,
>
> I am building a 64-bit R 2.0.1 on Solaris 9.  The compiler is Sun Studio
> 8.  Make was successful but I have a core dump during a make check.  By
> the way, this problem also happens on my Solaris 8 machine though I did
> not get a core dump.  I do not have 64-bit versions of the readline,
> tcl/tk, libncurses, etc libraries so these caused configure not to use
> them with ELFCLASS32 errors.
>
> I use the following flags in config.site:
> CC="cc -xarch=v9"
> CFLAGS="-xO5 -xlibmil -dalign"
> F77="f95 -xarch=v9"
> FFLAGS="-xO5 -xlibmil -dalign"
> CXX="CC -xarch=v9"
>
>
> I pasted the make check error messages below:
> $ make check
> collecting examples for package 'base' ...
> >>> Building/Updating help pages for package 'base'
>     Formats: text html latex example
> running code in 'base-Ex.R' ...*** Error code 1
> make: Fatal error: Command failed for target `base-Ex.Rout'
> Current working directory /export/home/cheeseng/R-2.0.1/tests/Examples
> *** Error code 1
> make: Fatal error: Command failed for target `test-Examples-Base'
> Current working directory /export/home/cheeseng/R-2.0.1/tests/Examples
> *** Error code 1
> make: Fatal error: Command failed for target `test-Examples'
> Current working directory /export/home/cheeseng/R-2.0.1/tests
> *** Error code 1
> make: Fatal error: Command failed for target `test-all-basics'
> Current working directory /export/home/cheeseng/R-2.0.1/tests
> *** Error code 1
> make: Fatal error: Command failed for target `check'
>
>
> The last few lines in base-Ex.Rout.fail is:
>> ### * kappa
>>
>> flush(stderr()); flush(stdout())
>>
>> ### Name: kappa
>> ### Title: Estimate the Condition Number
>> ### Aliases: kappa kappa.default kappa.lm kappa.qr kappa.tri
>> ### Keywords: math
>>
>> ### ** Examples
>>
>> kappa(x1 <- cbind(1,1:10))# 15.71
> [1] 15.70590
>
>
> Doing a dbx on the core dump shows that the following:
> program terminated by signal SEGV (no mapping at the fault address)
> 0xffffffff790fdf54: ___pl_dgesdd_64_+0x1654:    std      %f4, [%o1]
>
> I hope some one have a more successful build and can show how you did
> it.
>
> Thanks,
> Chee Seng
> UNIX Administrator
> Genome Institute of Singapore
> 60 Biopolis Street, Genome
> #02-01 Singapore 138672
> DID 64788065
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-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
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