[R] R 3.6.1 and apcluster package

[Jan Galkowski]

> # Test for saving. Jan Galkowski, 17th July 2019.
> # produceProtectionFault.R
> 
> library(apcluster)
> cl1 <- cbind(rnorm(100, 0.2, 0.05), rnorm(100, 0.8, 0.06))
> cl2 <- cbind(rnorm(50, 0.7, 0.08), rnorm(50, 0.3, 0.05))
> x <- rbind(cl1, cl2)
> 
> ## compute similarity matrix and run affinity propagation
> ## (p defaults to median of similarity)
> simil<- negDistMat(x, r=2)
> apres <- apcluster(s=simil, details=TRUE)
> apresX<- aggExCluster(s=simil, x=apres)
> 
> show(apres)
> show(apresX)
> 
> saveRDS(object=apresX, file="foo.rds", compress=TRUE)
> 
> #save(apresX, file="bar.data", compress=TRUE)
> 
> #save.image("crazy.RData")

The example is from the apcluster documentation. Leaving any one of the "save"s uncommented produces said fault. 

 - Jan

On Wed, Jul 17, 2019, at 08:18, Jeff Newmiller wrote:
> It would never make sense for such messages to reflect normal and expected operation, so hypothesizing about intentionally changing stack behavior doesn't make sense.
> 
> The default format for saveRDS changed in 3.6.0. There may be bugs associated with that, but rolling back to 3.6.0 would just trade bugs.
> 
> https://cran.r-project.org/doc/manuals/r-devel/NEWS.html
> 
> On July 16, 2019 8:56:28 PM CDT, Jan Galkowski <bayesianlogic.1 using gmail.com> wrote:
> >Did something seriously change in R 3.6.1 at least for Windows in terms
> >of stack impacts? 
> >
> >I'm encountering many problems with the 00UNLOCK, needing to disable
> >locking during installations. 
> >
> >And I'm encountering 
> >
> >> Error: C stack usage 63737888 is too close to the limit
> >
> >for cases I did not before, even when all I'm doing is serializing an
> >object to be saved with *saveRDS* or even *save.image(.)*. 
> >
> >Yes, I know, I did not append a minimally complete example. Just wanted
> >to see if it was just me, or if anyone else was seeing this.
> >
> >It's on Windows 7 HE and I've run *R* here for years.
> >
> >My inclination is to drop back to 3.6.0 if it is just me or if no one
> >knows about this problem. 
> >
> >Thanks,
> >
> > - Jan Galkowski.
> >
> >
> > [[alternative HTML version deleted]]
> >
> >______________________________________________
> >R-help using r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >https://stat.ethz.ch/mailman/listinfo/r-help
> >PLEASE do read the posting guide
> >http://www.R-project.org/posting-guide.html
> >and provide commented, minimal, self-contained, reproducible code.
> 
> -- 
> Sent from my phone. Please excuse my brevity.
> 

--
Jan Galkowski (o°)

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