Error(s) in re-building vignettes:
--- re-building 'mouse.Rmd' using rmarkdown
trying URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE60361&format=file&file=GSE60361%5FC1%2D3005%2DExpression%2Etxt%2Egz'
Content type 'text/html' length 13683 bytes (13 KB)
==================================================
downloaded 13 KB


Quitting from mouse.Rmd:38-77 [load-data]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `open.connection()`:
! cannot open the connection
---
Backtrace:
     ▆
  1. └─GEOquery::getGEO("GSE60361")
  2.   └─GEOquery:::getAndParseGSEMatrices(...)
  3.     └─GEOquery:::getDirListing(sprintf(gdsurl, stub, GEO))
  4.       ├─xml2::read_html(url)
  5.       └─xml2:::read_html.default(url)
  6.         ├─base::suppressWarnings(...)
  7.         │ └─base::withCallingHandlers(...)
  8.         ├─xml2::read_xml(x, encoding = encoding, ..., as_html = TRUE, options = options)
  9.         └─xml2:::read_xml.character(...)
 10.           └─xml2:::read_xml.connection(...)
 11.             ├─base::open(x, "rb")
 12.             └─base::open.connection(x, "rb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'mouse.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building 'mouse.Rmd'

--- re-building 'pbmc.Rmd' using rmarkdown
trying URL 'https://cf.10xgenomics.com/samples/cell-arc/2.0.0/pbmc_granulocyte_sorted_3k/pbmc_granulocyte_sorted_3k_filtered_feature_bc_matrix.h5'
Content type 'binary/octet-stream' length 38844318 bytes (37.0 MB)
==================================================
downloaded 37.0 MB


  |                                                                            
  |                                                                      |   0%
  |                                                                            
  |=========                                                             |  12%
  |                                                                            
  |==================                                                    |  25%
  |                                                                            
  |==========================                                            |  38%
  |                                                                            
  |===================================                                   |  50%
  |                                                                            
  |============================================                          |  62%
  |                                                                            
  |====================================================                  |  75%
  |                                                                            
  |=============================================================         |  88%
  |                                                                            
  |======================================================================| 100%
trying URL 'https://github.com/scmethods/scregclust/raw/main/datasets/pbmc_scregclust.rds'
Content type 'application/octet-stream' length 15045381 bytes (14.3 MB)
==================================================
downloaded 14.3 MB

--- finished re-building 'pbmc.Rmd'

SUMMARY: processing the following file failed:
  'mouse.Rmd'

Error: Vignette re-building failed.
Execution halted