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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cBioPortalData.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cBioPortalData_2.16.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/cBioPortalData.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cBioPortalData/DESCRIPTION’ ... OK
* this is package ‘cBioPortalData’ version ‘2.16.0’
* 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 ‘cBioPortalData’ 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 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 ... OK
* 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 files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘cBioPortalData-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cBioDataPack
> ### Title: Obtain pre-packaged data from cBioPortal and represent as a
> ###   MultiAssayExperiment object
> ### Aliases: cBioDataPack
> 
> ### ** Examples
> 
> 
> cbio <- cBioPortal()
> 
> head(getStudies(cbio)[["studyId"]])
[1] "acbc_mskcc_2015" "acyc_mskcc_2013" "acyc_fmi_2014"   "acyc_jhu_2016"  
[5] "acyc_mda_2015"   "acyc_mgh_2016"  
> 
> mae <- cBioDataPack("acc_tcga")
Downloading study file: acc_tcga.tar.gz
Warning: download failed
  web resource path: ‘https://cbioportal-datahub.s3.amazonaws.com/acc_tcga.tar.gz’
  local file path: ‘/Users/biocbuild/Library/Caches/org.R-project.R/R/cBioPortalData/file16bee2b1620d’
  reason: Timeout was reached: [cbioportal-datahub.s3.amazonaws.com] SSL connection timeout
Warning: bfcdownload() failed
  rid: BFC4096
  file: ‘https://cbioportal-datahub.s3.amazonaws.com/acc_tcga.tar.gz’
  reason: download failed

Error: download failed; see warnings()


Retrying download with alternative function...
Downloading study file: acc_tcga.tar.gz
dyld[95038]: Library not loaded: '/usr/local/opt/openssl@3/lib/libssl.3.dylib'
  Referenced from: '/usr/local/Cellar/wget/1.21.4/bin/wget'
  Reason: tried: '/usr/local/opt/openssl@3/lib/libssl.3.dylib' (no such file), '/usr/local/lib/libssl.3.dylib' (no such file), '/usr/lib/libssl.3.dylib' (no such file)
Error in utils::download.file(fileURL, destfile = tmpFile, quiet = TRUE,  : 
  'wget' call had nonzero exit status
Calls: cBioDataPack ... tryCatchOne -> <Anonymous> -> .altDownload -> <Anonymous>
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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
See
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/cBioPortalData.Rcheck/00check.log’
for details.