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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Damsel.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Damsel_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/Damsel.Rcheck’
* using R version 4.5.0 RC (2025-04-04 r88129)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Damsel/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Damsel’ version ‘1.4.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘Damsel’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... NOTE
Non-topic package-anchored link(s) in Rd file 'pipe.Rd':
  ‘[magrittr:pipe]{%>%}’

See section 'Cross-references' in the 'Writing R Extensions' manual.
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
plotWrap           17.302  0.327  17.641
annotatePeaksGenes 15.624  0.523  16.175
plotGeneOntology   12.527  0.729  13.421
geom_genes_tx      11.578  0.544  12.205
getGatcRegions     11.388  0.402  11.819
testGeneOntology    9.505  0.675  10.184
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
   17.                 │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   18.                 │ │   └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   19.                 │ │     └─base (local) doTryCatch(return(expr), name, parentenv, handler)
   20.                 │ └─base::force(expr)
   21.                 └─rlang::abort(...)
  ── Failure ('test-plot_genes.R:20:5'): geom_genes.tx: Output is no error ───────
  Expected `+...` to run without any errors.
  i Actually got a <httr2_failure> with text:
    Failed to perform HTTP request.
    Caused by error in `curl::curl_fetch_memory()`:
    ! Server returned nothing (no headers, no data) [feb2023.archive.ensembl.org]: Empty reply from server
  
  [ FAIL 4 | WARN 20 | SKIP 0 | PASS 100 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.21-bioc/meat/Damsel.Rcheck/00check.log’
for details.