there is no package called 'lungref.SeuratData' but present in AvailableData

Hello,

I wanted to download Azimuth lung reference that seems to be available in your package :

> AvailableData()$Dataset
 [1] "adiposeref"      "bmcite"          "bonemarrowref"   "cbmc"           
 [5] "celegans.embryo" "fetusref"        "hcabm40k"        "heartref"       
 [9] "humancortexref"  "ifnb"            "kidneyref"       "lungref"        
[13] "mousecortexref"  "panc8"           "pancreasref"     "pbmc3k"         
[17] "pbmcMultiome"    "pbmcref"         "pbmcsca"         "ssHippo"        
[21] "stxBrain"        "stxKidney"       "thp1.eccite"     "tonsilref"

But I have the following error when I tried to install lungref :

> InstallData("lungref")
Installing package into '/home/coca/R/x86_64-conda-linux-gnu-library/4.3'
(as 'lib' is unspecified)
trying URL 'http://seurat.nygenome.org/src/contrib/lungref.SeuratData_2.0.0.tar.gz'
Content type 'application/octet-stream' length 873928498 bytes (833.4 MB)
=============================
downloaded 498.2 MB

Error in download.file(url, destfile, method, mode = "wb", ...) : 
  download from 'http://seurat.nygenome.org/src/contrib/lungref.SeuratData_2.0.0.tar.gz' failed
In addition: Warning messages:
1: In download.file(url, destfile, method, mode = "wb", ...) :
  downloaded length 0 != reported length 0
2: In download.file(url, destfile, method, mode = "wb", ...) :
  URL 'https://seurat.nygenome.org/src/contrib/lungref.SeuratData_2.0.0.tar.gz': Timeout of 60 seconds was reached
Warning in download.packages(pkgs, destdir = tmpd, available = available,  :
  download of package 'lungref.SeuratData' failed
Error in loadNamespace(name) : 
  there is no package called 'lungref.SeuratData'

Can you help me please ?

Here is my sessionInfo :

> sessionInfo()
R version 4.3.1 (2023-06-16)
Platform: x86_64-conda-linux-gnu (64-bit)
Running under: Ubuntu 20.04.6 LTS

Matrix products: default
BLAS/LAPACK: /opt/rstudio-server_conda/conda/envs/rstudio-server_4.3.1/lib/libopenblasp-r0.3.24.so;  LAPACK version 3.11.0

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

time zone: Europe/Paris
tzcode source: system (glibc)

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

other attached packages:
 [1] Azimuth_0.5.0         shinyBS_0.61.1        SeuratData_0.2.2.9001
 [4] stringr_1.5.1         biomaRt_2.56.1        dbplyr_2.4.0         
 [7] patchwork_1.1.3       gridExtra_2.3         ggplot2_3.4.4        
[10] readr_2.1.4           dplyr_1.1.4           Seurat_5.0.1         
[13] SeuratObject_5.0.1    sp_2.1-1             

loaded via a namespace (and not attached):
  [1] fs_1.6.3                          ProtGenerics_1.34.0              
  [3] matrixStats_1.1.0                 spatstat.sparse_3.0-3            
  [5] bitops_1.0-7                      DirichletMultinomial_1.44.0      
  [7] TFBSTools_1.40.0                  httr_1.4.7                       
  [9] RColorBrewer_1.1-3                tools_4.3.1                      
 [11] sctransform_0.4.1                 utf8_1.2.4                       
 [13] R6_2.5.1                          DT_0.30                          
 [15] lazyeval_0.2.2                    uwot_0.1.16                      
 [17] rhdf5filters_1.14.1               withr_2.5.2                      
 [19] prettyunits_1.2.0                 progressr_0.14.0                 
 [21] cli_3.6.1                         Biobase_2.60.0                   
 [23] spatstat.explore_3.2-5            fastDummies_1.7.3                
 [25] EnsDb.Hsapiens.v86_2.99.0         shinyjs_2.1.0                    
 [27] spatstat.data_3.0-3               ggridges_0.5.4                   
 [29] pbapply_1.7-2                     Rsamtools_2.18.0                 
 [31] R.utils_2.12.3                    parallelly_1.36.0                
 [33] BSgenome_1.70.1                   rstudioapi_0.15.0                
 [35] RSQLite_2.3.3                     generics_0.1.3                   
 [37] BiocIO_1.12.0                     gtools_3.9.5                     
 [39] ica_1.0-3                         spatstat.random_3.2-1            
 [41] googlesheets4_1.1.1               GO.db_3.18.0                     
 [43] Matrix_1.6-3                      fansi_1.0.5                      
 [45] S4Vectors_0.38.1                  abind_1.4-5                      
 [47] R.methodsS3_1.8.2                 lifecycle_1.0.4                  
 [49] yaml_2.3.7                        SummarizedExperiment_1.30.2      
 [51] rhdf5_2.46.1                      SparseArray_1.2.2                
 [53] BiocFileCache_2.8.0               Rtsne_0.16                       
 [55] grid_4.3.1                        blob_1.2.4                       
 [57] promises_1.2.1                    shinydashboard_0.7.2             
 [59] crayon_1.5.2                      miniUI_0.1.1.1                   
 [61] lattice_0.22-5                    cowplot_1.1.1                    
 [63] GenomicFeatures_1.54.1            annotate_1.80.0                  
 [65] KEGGREST_1.40.0                   knitr_1.45                       
 [67] pillar_1.9.0                      GenomicRanges_1.52.0             
 [69] rjson_0.2.21                      future.apply_1.11.0              
 [71] codetools_0.2-19                  fastmatch_1.1-4                  
 [73] leiden_0.4.3.1                    glue_1.6.2                       
 [75] data.table_1.14.8                 vctrs_0.6.4                      
 [77] png_0.1-8                         spam_2.10-0                      
 [79] cellranger_1.1.0                  gtable_0.3.4                     
 [81] poweRlaw_0.70.6                   cachem_1.0.8                     
 [83] xfun_0.41                         Signac_1.12.0                    
 [85] S4Arrays_1.0.4                    mime_0.12                        
 [87] pracma_2.4.4                      survival_3.5-7                   
 [89] gargle_1.5.2                      RcppRoll_0.3.0                   
 [91] ellipsis_0.3.2                    fitdistrplus_1.1-11              
 [93] ROCR_1.0-11                       nlme_3.1-163                     
 [95] bit64_4.0.5                       progress_1.2.2                   
 [97] filelock_1.0.2                    RcppAnnoy_0.0.21                 
 [99] GenomeInfoDb_1.36.1               irlba_2.3.5.1                    
[101] KernSmooth_2.23-22                SeuratDisk_0.0.0.9021            
[103] colorspace_2.1-0                  seqLogo_1.68.0                   
[105] BiocGenerics_0.46.0               DBI_1.1.3                        
[107] tidyselect_1.2.0                  bit_4.0.5                        
[109] compiler_4.3.1                    curl_5.0.2                       
[111] hdf5r_1.3.8                       xml2_1.3.5                       
[113] DelayedArray_0.26.6               plotly_4.10.3                    
[115] rtracklayer_1.62.0                scales_1.2.1                     
[117] caTools_1.18.2                    lmtest_0.9-40                    
[119] rappdirs_0.3.3                    digest_0.6.33                    
[121] goftest_1.2-3                     presto_1.0.0                     
[123] spatstat.utils_3.0-4              rmarkdown_2.25                   
[125] XVector_0.40.0                    htmltools_0.5.7                  
[127] pkgconfig_2.0.3                   MatrixGenerics_1.12.2            
[129] fastmap_1.1.1                     ensembldb_2.26.0                 
[131] rlang_1.1.2                       htmlwidgets_1.6.2                
[133] shiny_1.7.5.1                     zoo_1.8-12                       
[135] jsonlite_1.8.7                    BiocParallel_1.36.0              
[137] R.oo_1.25.0                       RCurl_1.98-1.12                  
[139] magrittr_2.0.3                    GenomeInfoDbData_1.2.10          
[141] dotCall64_1.1-0                   Rhdf5lib_1.24.0                  
[143] munsell_0.5.0                     Rcpp_1.0.11                      
[145] reticulate_1.34.0                 stringi_1.8.1                    
[147] zlibbioc_1.46.0                   MASS_7.3-60                      
[149] plyr_1.8.9                        parallel_4.3.1                   
[151] listenv_0.9.0                     ggrepel_0.9.4                    
[153] deldir_1.0-9                      CNEr_1.38.0                      
[155] Biostrings_2.68.1                 splines_4.3.1                    
[157] tensor_1.5                        hms_1.1.3                        
[159] BSgenome.Hsapiens.UCSC.hg38_1.4.5 igraph_1.5.1                     
[161] spatstat.geom_3.2-7               RcppHNSW_0.5.0                   
[163] reshape2_1.4.4                    stats4_4.3.1                     
[165] TFMPvalue_0.0.9                   XML_3.99-0.15                    
[167] evaluate_0.23                     JASPAR2020_0.99.10               
[169] tzdb_0.4.0                        httpuv_1.6.12                    
[171] RANN_2.6.1                        tidyr_1.3.0                      
[173] purrr_1.0.2                       polyclip_1.10-6                  
[175] future_1.33.0                     scattermore_1.2                  
[177] xtable_1.8-4                      restfulr_0.0.15                  
[179] AnnotationFilter_1.26.0           RSpectra_0.16-1                  
[181] later_1.3.1                       googledrive_2.1.1                
[183] viridisLite_0.4.2                 tibble_3.2.1                     
[185] memoise_2.0.1                     AnnotationDbi_1.62.2             
[187] GenomicAlignments_1.38.0          IRanges_2.34.1                   
[189] cluster_2.1.4                     globals_0.16.2

Best Lea

satijalab / seurat-data

there is no package called 'lungref.SeuratData' but present in AvailableData #79