[BUG] Fail to obtain the spe data of DLPFC

[YikaiLou]

hello, thank you for creating such an outstanding work.Recently, I wanted to input the datasets, but it shows an error: library(spatialLIBD) library(ExperimentHub) packageVersion("spatialLIBD") ehub <- ExperimentHub::ExperimentHub() spe <- spatialLIBD::fetch_data(type = "spe", eh = ehub)

packageVersion("spatialLIBD") [1] '1.14.1' ehub <- ExperimentHub::ExperimentHub() snapshotDate(): 2023-10-24 spe <- spatialLIBD::fetch_data(type = "spe", eh = ehub) Error in inherits(ram, "try-error") || length(ram) == 0L || is.na(ram) : 'length = 9' in coercion to 'logical(1)'

Here are the information details:

R version 4.3.3 (2024-02-29 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 11 x64 (build 22000)

Matrix products: default

locale: [1] LC_COLLATE=Chinese (Simplified)_China.utf8 [2] LC_CTYPE=Chinese (Simplified)_China.utf8 [3] LC_MONETARY=Chinese (Simplified)_China.utf8 [4] LC_NUMERIC=C [5] LC_TIME=Chinese (Simplified)_China.utf8

time zone: Asia/Shanghai tzcode source: internal

attached base packages: [1] stats4 stats graphics grDevices utils datasets methods [8] base

other attached packages: [1] ExperimentHub_2.10.0 AnnotationHub_3.10.0 [3] BiocFileCache_2.10.2 dbplyr_2.5.0 [5] spatialLIBD_1.14.1 ggspavis_1.8.1 [7] cowplot_1.1.3 scater_1.30.1 [9] ggplot2_3.5.0 scuttle_1.12.0 [11] data.table_1.15.4 Seurat_5.0.3 [13] SeuratObject_5.0.1 sp_2.1-3 [15] SpatialExperiment_1.12.0 SingleCellExperiment_1.24.0 [17] SummarizedExperiment_1.32.0 Biobase_2.62.0 [19] GenomicRanges_1.54.1 GenomeInfoDb_1.38.8 [21] IRanges_2.36.0 S4Vectors_0.40.2 [23] BiocGenerics_0.48.1 MatrixGenerics_1.14.0 [25] matrixStats_1.2.0 Banksy_0.99.9

loaded via a namespace (and not attached): [1] spatstat.sparse_3.0-3 bitops_1.0-7 [3] httr_1.4.7 RColorBrewer_1.1-3 [5] doParallel_1.0.17 tools_4.3.3 [7] sctransform_0.4.1 utf8_1.2.4 [9] R6_2.5.1 DT_0.33 [11] lazyeval_0.2.2 uwot_0.1.16 [13] withr_3.0.0 gridExtra_2.3 [15] progressr_0.14.0 cli_3.6.2 [17] spatstat.explore_3.2-7 fastDummies_1.7.3 [19] sass_0.4.9 spatstat.data_3.0-4 [21] ggridges_0.5.6 pbapply_1.7-2 [23] Rsamtools_2.18.0 dbscan_1.1-12 [25] aricode_1.0.3 sessioninfo_1.2.2 [27] parallelly_1.37.1 attempt_0.3.1 [29] maps_3.4.2 limma_3.58.1 [31] RSQLite_2.3.6 BiocIO_1.12.0 [33] generics_0.1.3 ica_1.0-3 [35] spatstat.random_3.2-3 dplyr_1.1.4 [37] Matrix_1.6-5 ggbeeswarm_0.7.2 [39] fansi_1.0.6 abind_1.4-5 [41] lifecycle_1.0.4 yaml_2.3.8 [43] edgeR_4.0.16 SparseArray_1.2.4 [45] Rtsne_0.17 paletteer_1.6.0 [47] grid_4.3.3 blob_1.2.4 [49] promises_1.2.1 crayon_1.5.2 [51] miniUI_0.1.1.1 lattice_0.22-6 [53] beachmat_2.18.1 KEGGREST_1.42.0 [55] magick_2.8.3 pillar_1.9.0 [57] knitr_1.46 rjson_0.2.21 [59] future.apply_1.11.2 codetools_0.2-20 [61] leiden_0.4.3.1 glue_1.7.0 [63] vctrs_0.6.5 png_0.1-8 [65] spam_2.10-0 gtable_0.3.5 [67] rematch2_2.1.2 cachem_1.0.8 [69] xfun_0.43 S4Arrays_1.2.1 [71] mime_0.12 ggside_0.3.1 [73] survival_3.5-8 RcppHungarian_0.3 [75] iterators_1.0.14 fields_15.2 [77] statmod_1.5.0 interactiveDisplayBase_1.40.0 [79] fitdistrplus_1.1-11 ROCR_1.0-11 [81] nlme_3.1-164 bit64_4.0.5 [83] filelock_1.0.3 RcppAnnoy_0.0.22 [85] bslib_0.7.0 irlba_2.3.5.1 [87] vipor_0.4.7 KernSmooth_2.23-22 [89] colorspace_2.1-0 DBI_1.2.2 [91] tidyselect_1.2.1 bit_4.0.5 [93] compiler_4.3.3 curl_5.2.1 [95] BiocNeighbors_1.20.2 DelayedArray_0.28.0 [97] plotly_4.10.4 rtracklayer_1.62.0 [99] scales_1.3.0 lmtest_0.9-40 [101] rappdirs_0.3.3 stringr_1.5.1 [103] digest_0.6.35 goftest_1.2-3 [105] spatstat.utils_3.0-4 benchmarkmeData_1.0.4 [107] XVector_0.42.0 htmltools_0.5.8 [109] pkgconfig_2.0.3 sparseMatrixStats_1.14.0 [111] fastmap_1.1.1 rlang_1.1.3 [113] htmlwidgets_1.6.4 shiny_1.8.1.1 [115] DelayedMatrixStats_1.24.0 jquerylib_0.1.4 [117] zoo_1.8-12 jsonlite_1.8.8 [119] BiocParallel_1.36.0 mclust_6.1 [121] config_0.3.2 BiocSingular_1.18.0 [123] RCurl_1.98-1.14 magrittr_2.0.3 [125] GenomeInfoDbData_1.2.11 dotCall64_1.1-1 [127] patchwork_1.2.0 munsell_0.5.1 [129] Rcpp_1.0.12 viridis_0.6.5 [131] reticulate_1.35.0 leidenAlg_1.1.3 [133] stringi_1.8.3 zlibbioc_1.48.2 [135] MASS_7.3-60.0.1 plyr_1.8.9 [137] parallel_4.3.3 listenv_0.9.1 [139] ggrepel_0.9.5 deldir_2.0-4 [141] Biostrings_2.70.3 sccore_1.0.5 [143] splines_4.3.3 tensor_1.5 [145] locfit_1.5-9.9 igraph_2.0.3 [147] spatstat.geom_3.2-9 RcppHNSW_0.6.0 [149] reshape2_1.4.4 ScaledMatrix_1.10.0 [151] XML_3.99-0.16.1 BiocVersion_3.18.1 [153] golem_0.4.1 BiocManager_1.30.23 [155] foreach_1.5.2 httpuv_1.6.15 [157] RANN_2.6.1 tidyr_1.3.1 [159] purrr_1.0.2 polyclip_1.10-6 [161] future_1.33.2 benchmarkme_1.0.8 [163] scattermore_1.2 rsvd_1.0.5 [165] xtable_1.8-4 restfulr_0.0.15 [167] RSpectra_0.16-1 later_1.3.2 [169] viridisLite_0.4.2 tibble_3.2.1 [171] GenomicAlignments_1.38.2 memoise_2.0.1 [173] beeswarm_0.4.0 AnnotationDbi_1.64.1 [175] cluster_2.1.6 shinyWidgets_0.8.6 [177] globals_0.16.3