[R-pkg-devel] Cannot reproduce CRAN error (Solaris i386)

[Gábor Csárdi]

Actually, I can reproduce it if I use the Oracle Studio compilers. You
can also reproduce it on R-hub like this:

rhub::check("metapack_0.1.0.tar.gz", platform = "solaris-x86-patched-ods")

I suggest you fix the valgrind issues first, because they might be
causing this crash as well.

You can also get a Solaris VM, to make it easier to debug the issue on
Solaris: https://github.com/r-hub/solarischeck/tree/master/packer Let
me know if you don't want to build the VM yourself, and I can give you
access to one.

Gabor

On Thu, Feb 18, 2021 at 10:54 AM Gábor Csárdi <csardi.gabor using gmail.com> wrote:
>
> FWIW this code does not give me any warnings or errors on Solaris and
> R 4.0.4 and the current CRAN version of metapack.
>
> Gabor
>
> On Thu, Feb 18, 2021 at 1:54 AM Daeyoung Lim <daeyoung.lim using uconn.edu> wrote:
> >
> > Hello,
> >
> > I have a package on CRAN called 'metapack' and received a message from
> > Professor Ripley that the error must be resolved for the package to be
> > safely retained in CRAN. I've encountered this error on R-CMD-check on
> > GitHub but cannot replicate it on any of my local machines to save my life.
> > The reproducible code snippet is as follows (I use Rcpp/RcppArmadillo):
> >
> > library(metapack)
> > data("cholesterol")
> > Outcome <- model.matrix(~ pldlc + phdlc + ptg, data = cholesterol)
> > SD <- model.matrix(~ sdldl + sdhdl + sdtg, data = cholesterol)
> > Trial <- cholesterol$Trial
> > Treat <- cholesterol$trt
> > Npt <- cholesterol$Npt
> > XCovariate <- model.matrix(~ 0 + bldlc + bhdlc + btg + age + durat +
> > white + male + dm, data = cholesterol)
> > WCovariate <- model.matrix(~ trt, data = cholesterol)
> >
> > fmodel <- 1
> > set.seed(2797542)
> > fit <- bayes.parobs(Outcome, SD, XCovariate, WCovariate, Treat, Trial,
> >   Npt, fmodel, mcmc = list(ndiscard = 1, nskip = 1, nkeep = 1),
> >   scale_x = TRUE, group = cholesterol$onstat, verbose = FALSE)
> >
> > which gives me the following error:
> >
> > warning: chol(): given matrix is not symmetric  error: chol():
> > decomposition failed
> >
> > This can't be true because (1) it runs without problem on other machines,
> > (2) every matrix that is Cholesky-decomposed is ensured to be symmetric
> > through Sig = 0.5 * (Sig + Sig.t());. Even with Sig = arma::symmatu(Sig)
> > doesn't seem to guarantee symmetry.
> >
> > Has anyone encountered something similar to this?
> > Thank you for your time.
> >
> > *Daeyoung Lim, MS*
> >
> > Ph.D. Student
> >
> > Department of Statistics
> >
> > University of Connecticut
> >
> > Philip E. Austin, <https://goo.gl/maps/HsS7bzAMgCw>215 Glenbrook Road
> > <https://goo.gl/maps/HsS7bzAMgCw>
> >
> > Storrs Mansfield, CT 06269-4120 <https://goo.gl/maps/HsS7bzAMgCw>
> >
> >         [[alternative HTML version deleted]]
> >
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