app works local, but unable to deploy - 'Error downloading package source: HTTP 599: Connection closed'

a MRE is provided below. This works locally, but when I publish I get 'Error downloading package source: HTTP 599: Connection closed'

#mafdb_hg19 <- MafDb.gnomAD.r2.1.hs37d5
#mafdb_hg38 <- MafH5.gnomAD.v3.1.2.GRCh38
#hg19 <- BSgenome.Hsapiens.UCSC.hg19
#hg38 <- BSgenome.Hsapiens.UCSC.hg38

ui <- fluidPage(
    # Application title
server <- function(input, output) {
# Run the application 
shinyApp(ui = ui, server = server)

The error I get when I try to publish Error: Unhandled Exception: Child Task 1167525167 failed: Error building image: Error fetching MafDb.gnomAD.r2.1.hs37d5 (3.10.0) source. Error downloading package source: HTTP 599: Connection closed

Since MafDb is large, I've tried the following in my Rconsole before publishing, but it did not help.


since GenomeInfoDb works, this tells me the repos for Bioconductor are set correctly,

edit to add sessioninfo

> sessionInfo( )
R version 4.2.0 (2022-04-22 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 17134)

Matrix products: default

[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

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

other attached packages:
 [1] BSgenome.Hsapiens.UCSC.hg38_1.4.4 BSgenome.Hsapiens.UCSC.hg19_1.4.3 MafH5.gnomAD.v3.1.2.GRCh38_3.15.0 MafDb.gnomAD.r2.1.hs37d5_3.10.0  
 [5] GenomicScores_2.8.0               BSgenome_1.64.0                   rtracklayer_1.56.0                Biostrings_2.64.0                
 [9] XVector_0.36.0                    GenomicRanges_1.48.0              GenomeInfoDb_1.32.2               IRanges_2.30.0                   
[13] S4Vectors_0.34.0                  BiocGenerics_0.42.0               dplyr_1.0.9                       DT_0.23                          
[17] shiny_1.7.1                      

loaded via a namespace (and not attached):
 [1] bitops_1.0-7                  matrixStats_0.62.0            bit64_4.0.5                   filelock_1.0.2               
 [5] httr_1.4.3                    tools_4.2.0                   bslib_0.3.1                   utf8_1.2.2                   
 [9] R6_2.5.1                      HDF5Array_1.24.1              DBI_1.1.2                     rhdf5filters_1.8.0           
[13] withr_2.5.0                   tidyselect_1.1.2              bit_4.0.4                     curl_4.3.2                   
[17] compiler_4.2.0                cli_3.3.0                     Biobase_2.56.0                DelayedArray_0.22.0          
[21] sass_0.4.1                    askpass_1.1                   rappdirs_0.3.3                digest_0.6.29                
[25] Rsamtools_2.12.0              pkgconfig_2.0.3               htmltools_0.5.2               MatrixGenerics_1.8.0         
[29] dbplyr_2.2.0                  fastmap_1.1.0                 htmlwidgets_1.5.4             rlang_1.0.2                  
[33] rstudioapi_0.13               RSQLite_2.2.14                jquerylib_0.1.4               BiocIO_1.6.0                 
[37] generics_0.1.2                jsonlite_1.8.0                BiocParallel_1.30.3           RCurl_1.98-1.6               
[41] magrittr_2.0.3                GenomeInfoDbData_1.2.8        Matrix_1.4-1                  Rcpp_1.0.8.3                 
[45] Rhdf5lib_1.18.2               fansi_1.0.3                   lifecycle_1.0.1               yaml_2.3.5                   
[49] SummarizedExperiment_1.26.1   zlibbioc_1.42.0               rhdf5_2.40.0                  BiocFileCache_2.4.0          
[53] AnnotationHub_3.4.0           grid_4.2.0                    blob_1.2.3                    parallel_4.2.0               
[57] promises_1.2.0.1              crayon_1.5.1                  lattice_0.20-45               KEGGREST_1.36.0              
[61] pillar_1.7.0                  rjson_0.2.21                  codetools_0.2-18              XML_3.99-0.9                 
[65] glue_1.6.2                    BiocVersion_3.15.2            packrat_0.8.0                 BiocManager_1.30.18          
[69] vctrs_0.4.1                   png_0.1-7                     httpuv_1.6.5                  openssl_2.0.2                
[73] purrr_0.3.4                   assertthat_0.2.1              cachem_1.0.6                  mime_0.12                    
[77] xtable_1.8-4                  restfulr_0.0.14               later_1.3.0                   rsconnect_0.8.26             
[81] tibble_3.1.7                  GenomicAlignments_1.32.0      AnnotationDbi_1.58.0          memoise_2.0.1                
[85] ellipsis_0.3.2                interactiveDisplayBase_1.34.0```

This topic was automatically closed 54 days after the last reply. New replies are no longer allowed.

If you have a query related to it or one of the replies, start a new topic and refer back with a link.