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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MsBackendMetaboLights.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MsBackendMetaboLights_1.3.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/MsBackendMetaboLights.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-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 Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MsBackendMetaboLights/DESCRIPTION’ ... OK
* this is package ‘MsBackendMetaboLights’ version ‘1.3.1’
* 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 ‘MsBackendMetaboLights’ 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 ‘MsBackendMetaboLights-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: MetaboLights-utils
> ### Title: Utility functions for the MetaboLights repository
> ### Aliases: MetaboLights-utils mtbls_ftp_path mtbls_list_files
> ###   mtbls_sync_data_files mtbls_cached_data_files mtbls_delete_cache
> 
> ### ** Examples
> 
> 
> ## Get the FTP path to the data set MTBLS2
> mtbls_ftp_path("MTBLS2")
[1] "ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS2/"
> 
> ## Retrieve available files (and directories) for the data set MTBLS2
> mtbls_list_files("MTBLS2")
[1] "FILES"                                                     
[2] "HASHES"                                                    
[3] "METADATA_REVISIONS"                                        
[4] "a_MTBLS2_metabolite_profiling_mass_spectrometry.txt"       
[5] "i_Investigation.txt"                                       
[6] "m_MTBLS2_metabolite_profiling_mass_spectrometry_v2_maf.tsv"
[7] "s_MTBLS2.txt"                                              
> 
> ## Retrieve the available assay files (file names starting with "a_").
> afiles <- mtbls_list_files("MTBLS2", pattern = "^a_")
> afiles
[1] "a_MTBLS2_metabolite_profiling_mass_spectrometry.txt"
> 
> ## Read the content of one file
> a <- read.table(paste0(mtbls_ftp_path("MTBLS2"), afiles[1L]),
+     header = TRUE, sep = "\t", check.names = FALSE)
Warning in file(file, "rt") :
  URL 'ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS2/a_MTBLS2_metabolite_profiling_mass_spectrometry.txt': status was 'Failure when receiving data from the peer'
Error in file(file, "rt") : 
  cannot open the connection to 'ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS2/a_MTBLS2_metabolite_profiling_mass_spectrometry.txt'
Calls: read.table -> file
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-3.22-bioc/meat/MsBackendMetaboLights.Rcheck/00check.log’
for details.