Yes, the resubmission and re-building has fixed the problem with buildmer/ Matrix. Carl
On Tue, Oct 18, 2022 at 12:17 PM Duncan Murdoch <murdoch.dun...@gmail.com> wrote: > I see the same thing. This sounds like a problem in the handling of > methods that has been discussed somewhat recently: > > https://stat.ethz.ch/pipermail/r-devel/2022-September/081971.html > > The problem is that when the binary is built, some code from other > packages is kept as part of it. When that other package is updated, you > need a new source install of your own package (or a rebuild at CRAN to > replace the binary) to cache the new code. > > This can also be done explicitly by package startup code; I think this > thread > > https://stat.ethz.ch/pipermail/r-package-devel/2022q3/008481.html > > turned out to be a case where rstan was caching something, and an update > to ggplot2 didn't work with the cached data. Given the error message, > your issue sounds more like the first one. > > I don't recall if there was a resolution. Maybe you can ask the CRAN > maintainers to rebuild buildmer. > > Duncan Murdoch > > > > > > On 18/10/2022 2:51 p.m., Carl Schwarz wrote: > > I've run into a problem where if you install the lme4, Matrix, and > buildmer > > packages using the binaries from CRAN on a Mac, I get an error message > > about a missing method, but if I install the same packages from SOURCE, > the > > code runs fine. > > > > I would have thought that installing from source or using the binary > > should look the same. > > > > Any suggestions on how to proceed to resolve this issue? > > > > The maintainer of buildmer is also puzzled. > > You can follow the issue in more detail at: > > https://github.com/cvoeten/buildmer/issues/20 > > > > This is way above my paygrade... > > > > Carl Schwarz > > > > ------------------------------------------------------ > > > > Tried this on an intel-Mac and arm-Mac with the same result. > > Works fine on Windows machines under both scenarios. > > > > Here is a test example > > > > library(buildmer) > > library(lme4) > > > > nrow <- 100 > > > > test <- data.frame(x01=runif(nrow), > > y=runif(nrow)<.1, > block=as.factor(floor((1:nrow)/50))) > > head(test) > > > > > > fit.model <- lme4::glmer(y~x01 + (1|block), data=test, > > family=binomial(link="logit")) > > fit.model # this works > > > > class(fit.model) > > > > summary(fit.model) > > # gives the following error message > > Error in diag(from, names = FALSE) : object 'dgeMatrix_getDiag' not found > > > > A pdf document showing output is attached (shows the sessionInfo etc). > > > > When you install the buildmer and Matrix packages from SOURCE, it runs > fine. > > > > I've tried all combinations of installing binary/source and only if both > > packages (Matrix and buidmer) are installed from source, does the code > run. > > > > Same issue on an intel-Mac. > > Same issue when running under the R directly rather than Rstudio on a > Mac. > > > > > > ______________________________________________ > > R-package-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-package-devel > > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
