Hi Harvè, thanks for your reply and suggestion, we'll definitively try what you suggested.
Dario Il 13/12/22 20:57, Hervé Pagès ha scritto: > Hi Dario, > > Note that we observe the same problem on our daily Windows builder, so > this has not much to do with your GitHub actions setup: > > https://bioconductor.org/checkResults/3.17/bioc-LATEST/SpatialExperiment/palomino3-buildsrc.html > > > > It looks to me that some recent changes to the package broke the dim() > method for StoredSpatialImage objects. Here is how the method is > defined in BioC devel: > > > selectMethod("dim", "StoredSpatialImage") > Object with tracing code, class "MethodDefinitionWithTrace" > Original definition: > Method Definition: > > function (x) > { > src <- imgSource(x) > src <- normalizePath(src) > src <- paste0("file://", src) > img <- .get_from_cache(src, NULL) > if (!is.null(img)) > return(dim(img)) > img <- image_read(src) > tib <- image_info(img) > c(tib$height, tib$width) > } > <bytecode: 0x55a3f2dee5b8> > <environment: namespace:SpatialExperiment> > > Signatures: > x > target "StoredSpatialImage" > defined "StoredSpatialImage" > > ## (to see the tracing code, look at body(object)) > > I'm not sure I understand the logic for prefixing the already > normalized local path with "file://", but this breaks > magick::image_read() on Windows. Without the "file://" prefix, the > dim() method seems to work fine on all platforms. > > Hope this helps, > > H. > > On 12/12/2022 02:11, Dario Righelli wrote: >> Hi everyone, >> >> we are having an issue when running GithubActions on Windows platform >> that we are not able to figure out. >> >> The error is about loading an image as a grob during the vignette >> construction. >> It seems that it loads the image path twice, but this sounds weird >> because the same vignette code is working on the other two platforms >> (linux and osx). >> >> Does anyone have any ideas about this? >> >> Here it is the reported check error: >> >> Quitting from lines 110-111 (SpatialExperiment.Rmd) Error: processing >> vignette 'SpatialExperiment.Rmd' failed with diagnostics: Rscript.exe: >> UnableToOpenBlob >> `F:\biocbuild\bbs-3.17-bioc\tmpdir\RtmpsN0lzb\Rbuild3f6c3ae24a46\SpatialExperiment\vignettes\file:\F:\biocbuild\bbs-3.17-bioc\tmpdir\RtmpsN0lzb\Rinst3f6c113c6bc2\SpatialExperiment\extdata\10xVisium\section1\outs\spatial\tissue_lowres_image.png': >> >> >> Invalid argument @ error/blob.c/OpenBlob/2924 --- failed re-building >> 'SpatialExperiment.Rmd' >> >> Thanks, Dario >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
