Thanks for the clarification. Fingers crossed! Edward
On Wed, Oct 30, 2024 at 7:34 PM Hervé Pagès <hpages.on.git...@gmail.com> wrote: > Hi Edward, > > arrow is a CRAN package with Mac binaries available for R 4.4 so our build > system just install that. Note that Mac package binaries should be > self-contained (they use static linking), so they should **never** require > any external system library. > > Not sure why we see this error on lconway. It could be that there was a > problem with the Mac binary provided by CRAN (it looks like they updated > the binary on Sept 12), or something went wrong when it landed on lconway, > hard to know. In any case, I just reinstalled the package on lconway and > that seems to have solved the problem, that is, now I can library(arrow) in > an interactive session on the machine. > > I might have done this too late for the fix to have any impact on > tomorrow's build report for 3.20. Let's see how things are going for > BayesSpace on Friday's report. > > Best, > > H. > On 10/23/24 01:29, Edward Zhao wrote: > > Hello, > > I have made updates to my package BayesSpace on the devel branch and it > shows an error on macOS only due to an error with the arrow dependency: > > unable to load shared object > '/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/arrow/libs/arrow.so': > dlopen(/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/arrow/libs/arrow.so, > 0x0006): symbol not found in flat namespace (_ZSTD_compress) > > > This is a CRAN package that passes CRAN > checks<https://cran.r-project.org/web/checks/check_results_arrow.html> > <https://cran.r-project.org/web/checks/check_results_arrow.html>, but it > seems like they are having problems on macOS > (https://github.com/apache/arrow/issues/44206,https://github.com/apache/arrow/issues/40667), > which is the version on the > build environment. There is a comment here that suggests installing from > r-universe instead of CRAN. > > I've been messaging with Martin Grigorov on slack, who suggested that I > should request zstd to be installed on the builder machine. My collaborator > Senbai (cc'd) who has been looking into this also suggested to install > libarrow with "full features" since the current libarrow on the machine > does not support zstd compression type. > > Please let me know if there's anything I can do to help get this resolved. > It is affecting not only my package but also others that use arrow (e.g. > VisiumIO <https://bioconductor.org/checkResults/devel/bioc-LATEST/VisiumIO/> > <https://bioconductor.org/checkResults/devel/bioc-LATEST/VisiumIO/>, > SpatialFeatureExperiment<https://bioconductor.org/checkResults/devel/bioc-LATEST/SpatialFeatureExperiment/> > > <https://bioconductor.org/checkResults/devel/bioc-LATEST/SpatialFeatureExperiment/>). > Thanks! > > Best, > Edward > > [[alternative HTML version deleted]] > > _______________________________________________bioc-de...@r-project.org > mailing listhttps://stat.ethz.ch/mailman/listinfo/bioc-devel > > -- > Hervé Pagès > > Bioconductor Core teamhpages.on.git...@gmail.com > > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
