Error: 'H5ADToH5Seurat' is not an exported object from 'namespace:SeuratDisk'

[Flu09]

trial <- SeuratDisk::H5ADToH5Seurat(h5ad_path, dest, assay = "RNA", overwrite = FALSE, verbose = TRUE)

Error: 'H5ADToH5Seurat' is not an exported object from 'namespace:SeuratDisk'

sessionInfo() R version 4.3.2 (2023-10-31) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 22.04.4 LTS

Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.10.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.10.0

locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

time zone: Africa/Cairo tzcode source: system (glibc)

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

other attached packages: [1] SeuratWrappers_0.3.2 SeuratDisk_0.0.0.9021 Seurat_5.0.1 SeuratObject_5.0.1 sp_2.1-3 shinyBS_0.61.1

loaded via a namespace (and not attached): [1] fs_1.6.3 ProtGenerics_1.34.0 matrixStats_1.2.0 spatstat.sparse_3.0-3
[5] bitops_1.0-7 DirichletMultinomial_1.44.0 TFBSTools_1.40.0 httr_1.4.7
[9] RColorBrewer_1.1-3 tools_4.3.2 sctransform_0.4.1 utf8_1.2.4
[13] R6_2.5.1 DT_0.31 lazyeval_0.2.2 uwot_0.1.16
[17] rhdf5filters_1.14.1 withr_3.0.0 prettyunits_1.2.0 gridExtra_2.3
[21] progressr_0.14.0 cli_3.6.2 Biobase_2.62.0 spatstat.explore_3.2-6
[25] fastDummies_1.7.3 EnsDb.Hsapiens.v86_2.99.0 shinyjs_2.1.0 spatstat.data_3.0-4
[29] readr_2.1.5 ggridges_0.5.6 pbapply_1.7-2 Rsamtools_2.18.0
[33] R.utils_2.12.3 parallelly_1.36.0 BSgenome_1.70.1 rstudioapi_0.15.0
[37] RSQLite_2.3.5 generics_0.1.3 BiocIO_1.12.0 gtools_3.9.5
[41] ica_1.0-3 spatstat.random_3.2-2 googlesheets4_1.1.1 dplyr_1.1.4
[45] GO.db_3.18.0 Matrix_1.6-5 fansi_1.0.6 S4Vectors_0.40.2
[49] abind_1.4-5 R.methodsS3_1.8.2 lifecycle_1.0.4 yaml_2.3.8
[53] SummarizedExperiment_1.32.0 rhdf5_2.46.1 SparseArray_1.2.3 BiocFileCache_2.10.1
[57] Rtsne_0.17 grid_4.3.2 blob_1.2.4 promises_1.2.1
[61] ExperimentHub_2.10.0 shinydashboard_0.7.2 crayon_1.5.2 dir.expiry_1.10.0
[65] miniUI_0.1.1.1 lattice_0.22-5 cowplot_1.1.3 annotate_1.80.0
[69] GenomicFeatures_1.54.3 KEGGREST_1.42.0 pillar_1.9.0 knitr_1.45
[73] GenomicRanges_1.54.1 rjson_0.2.21 future.apply_1.11.1 codetools_0.2-19
[77] fastmatch_1.1-4 leiden_0.4.3.1 glue_1.7.0 remotes_2.4.2.1
[81] data.table_1.15.0 vctrs_0.6.5 png_0.1-8 spam_2.10-0
[85] cellranger_1.1.0 gtable_0.3.4 poweRlaw_0.80.0 cachem_1.0.8
[89] xfun_0.41 Signac_1.12.0 S4Arrays_1.2.0 mime_0.12
[93] pracma_2.4.4 survival_3.5-7 gargle_1.5.2 SingleCellExperiment_1.24.0
[97] RcppRoll_0.3.0 interactiveDisplayBase_1.40.0 ellipsis_0.3.2 fitdistrplus_1.1-11
[101] ROCR_1.0-11 nlme_3.1-163 bit64_4.0.5 progress_1.2.3
[105] filelock_1.0.3 RcppAnnoy_0.0.22 GenomeInfoDb_1.38.5 irlba_2.3.5.1
[109] KernSmooth_2.23-22 colorspace_2.1-0 seqLogo_1.68.0 BiocGenerics_0.48.1
[113] DBI_1.2.1 celldex_1.12.0 zellkonverter_1.12.1 tidyselect_1.2.0
[117] bit_4.0.5 compiler_4.3.2 curl_5.2.0 hdf5r_1.3.9
[121] basilisk.utils_1.14.1 xml2_1.3.6.9000 DelayedArray_0.28.0 plotly_4.10.4
[125] rtracklayer_1.62.0 scales_1.3.0 caTools_1.18.2 lmtest_0.9-40
[129] rappdirs_0.3.3 stringr_1.5.1 digest_0.6.34 goftest_1.2-3
[133] presto_1.0.0 spatstat.utils_3.0-4 rmarkdown_2.25 basilisk_1.14.3
[137] XVector_0.42.0 htmltools_0.5.7 pkgconfig_2.0.3 sparseMatrixStats_1.14.0
[141] MatrixGenerics_1.14.0 dbplyr_2.4.0 fastmap_1.1.1 ensembldb_2.26.0
[145] rlang_1.1.3 htmlwidgets_1.6.4 DelayedMatrixStats_1.24.0 shiny_1.8.0
[149] zoo_1.8-12 jsonlite_1.8.8 BiocParallel_1.36.0 R.oo_1.26.0
[153] RCurl_1.98-1.14 magrittr_2.0.3 GenomeInfoDbData_1.2.11 dotCall64_1.1-1
[157] patchwork_1.2.0 Rhdf5lib_1.24.1 munsell_0.5.0 Rcpp_1.0.12
[161] reticulate_1.35.0 stringi_1.8.3 zlibbioc_1.48.0 MASS_7.3-60.0.1
[165] AnnotationHub_3.10.0 plyr_1.8.9 parallel_4.3.2 listenv_0.9.1
[169] ggrepel_0.9.5 deldir_2.0-2 CNEr_1.38.0 Biostrings_2.70.2
[173] splines_4.3.2 tensor_1.5 hms_1.1.3 BSgenome.Hsapiens.UCSC.hg38_1.4.5 [177] igraph_2.0.1.1 spatstat.geom_3.2-8 RcppHNSW_0.6.0 reshape2_1.4.4
[181] biomaRt_2.58.2 stats4_4.3.2 TFMPvalue_0.0.9 BiocVersion_3.18.1
[185] XML_3.99-0.16.1 evaluate_0.23 BiocManager_1.30.22 JASPAR2020_0.99.10
[189] tzdb_0.4.0 httpuv_1.6.14 RANN_2.6.1 tidyr_1.3.1
[193] purrr_1.0.2 polyclip_1.10-6 future_1.33.1 SeuratData_0.2.2.9001
[197] scattermore_1.2 ggplot2_3.4.4 rsvd_1.0.5 xtable_1.8-4
[201] restfulr_0.0.15 AnnotationFilter_1.26.0 RSpectra_0.16-1 later_1.3.2
[205] googledrive_2.1.1 viridisLite_0.4.2 tibble_3.2.1 Azimuth_0.5.0
[209] memoise_2.0.1 AnnotationDbi_1.64.1 GenomicAlignments_1.38.2 IRanges_2.36.0
[213] cluster_2.1.6 globals_0.16.2