Hi Robert, I was able to load the dataset in the development version of R (which is higher than 4.0): ********

library(Seurat) d <- readRDS("blish_covid.seu.rds") d An object of class Seurat 52722 features across 44721 samples within 2 assays Active assay: SCT (26361 features, 3000 variable features) 1 other assay present: RNA 2 dimensional reductions calculated: pca, umap sessionInfo() R Under development (unstable) (2020-09-24 r79253) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS High Sierra 10.13.6

Matrix products: default BLAS: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRblas.dylib LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib locale: [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] Seurat_3.2.2 loaded via a namespace (and not attached): [1] nlme_3.1-149 matrixStats_0.56.0 RcppAnnoy_0.0.16 [4] RColorBrewer_1.1-2 httr_1.4.2 sctransform_0.3.1 [7] tools_4.1.0 R6_2.4.1 irlba_2.3.3 [10] rpart_4.1-15 KernSmooth_2.23-17 uwot_0.1.8 [13] lazyeval_0.2.2 mgcv_1.8-33 colorspace_1.4-1 [16] tidyselect_1.1.0 gridExtra_2.3 compiler_4.1.0 [19] plotly_4.9.2.1 scales_1.1.1 lmtest_0.9-38 [22] spatstat.data_1.4-3 ggridges_0.5.2 pbapply_1.4-3 [25] spatstat_1.64-1 goftest_1.2-2 stringr_1.4.0 [28] digest_0.6.25 spatstat.utils_1.17-0 pkgconfig_2.0.3 [31] htmltools_0.5.0 fastmap_1.0.1 htmlwidgets_1.5.2 [34] rlang_0.4.7 shiny_1.5.0 generics_0.0.2 [37] zoo_1.8-8 jsonlite_1.7.1 ica_1.0-2 [40] dplyr_1.0.2 magrittr_1.5 patchwork_1.0.1 [43] Matrix_1.2-18 Rcpp_1.0.5 munsell_0.5.0 [46] abind_1.4-5 reticulate_1.18 lifecycle_0.2.0 [49] stringi_1.5.3 MASS_7.3-53 Rtsne_0.15 [52] plyr_1.8.6 grid_4.1.0 parallel_4.1.0 [55] listenv_0.8.0 promises_1.1.1 ggrepel_0.8.2 [58] crayon_1.3.4 miniUI_0.1.1.1 deldir_0.1-29 [61] lattice_0.20-41 cowplot_1.1.0 splines_4.1.0 [64] tensor_1.5 pillar_1.4.6 tcltk_4.1.0 [67] igraph_1.2.6 future.apply_1.6.0 reshape2_1.4.4 [70] codetools_0.2-16 leiden_0.3.3 glue_1.4.2 [73] data.table_1.13.2 png_0.1-7 vctrs_0.3.4 [76] httpuv_1.5.4 gtable_0.3.0 RANN_2.6.1 [79] purrr_0.3.4 polyclip_1.10-0 tidyr_1.1.2 [82] future_1.19.1 ggplot2_3.3.2 rsvd_1.0.3 [85] mime_0.9 xtable_1.8-4 later_1.1.0.1 [88] survival_3.2-3 viridisLite_0.3.0 tibble_3.0.3 [91] cluster_2.1.0 globals_0.13.1 fitdistrplus_1.1-1 [94] ellipsis_0.3.1 ROCR_1.0-11 ******** Could you check again on your side? We will also add md5sums to the website later today. Hope this helps, Cheers, Vlad -- Vladimir Kiselev CellGen Informatics<http://www.sanger.ac.uk/science/groups/cellular-genetics-informatics> Team Leader Wellcome Sanger Institute Wellcome Genome Campus Hinxton, Cambridge, CB10 1SA Phone: +44 (0) 1223 496850 Message: Mattermost<https://mattermost.sanger.ac.uk/cellgeninf> or Slack<https://cellgeni.slack.com/> Web: https://wikiselev.github.io From: "Gentleman, Robert C." <Robert_Gentleman@hms.harvard.edu> Date: Monday, 26 October 2020 at 17:05 To: "cv19caingest@sanger.ac.uk" <cv19caingest@sanger.ac.uk> Subject: [Cv19caingest] want to report a problem [EXT] Hi Sorry to send to this address but I could not find out where to report problems. I wanted to download and use this file https://urldefense.proofpoint.com/v2/url?u=https-3A__hosted-2Dmatrices-2Dprod.s3-2Dus-2Dwest-2D2.amazonaws.com_Single-5Fcell-5Fatlas-5Fof-5Fperipheral-5Fimmune-5Fresponse-5Fto-5FSARS-5FCoV-5F2-5Finfection-2D25_blish-5Fcovid.seu.rds&d=DwIFAw&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=YCVDjNHxAgv8-gpjr0Xb48Y9Vk9U8oXzH6wskU6pf14&m=jHyycfiwLK3bOVXgQlFZhA6J8LKGcQd-cymrZIfTun0&s=kXGQNkvh8M8iNbCfkfHKNwoHQVp5XcLBwOmh5eioMEk&e= Which is supposed to be an R data set, unfortunately it is not and is corrupted or otherwise not valid (could be they used a very old version of R, but no information is provided on your website). It would be helpful to provide md5 checksums or other tools to help validate downloads etc. Robert