* using log directory ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.5/RGCCA.Rcheck’
* using R Under development (unstable) (2025-01-24 r87627)
* 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 Ventura 13.3.1
* using session charset: UTF-8
* checking for file ‘RGCCA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RGCCA’ version ‘3.0.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: ‘FactoMineR’
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘RGCCA’ can be installed ... [11s/16s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-macos-x86_64/RGCCA-00install.html' for details.
* 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 ... [3s/4s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
* checking whether the package can be unloaded cleanly ... [2s/4s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/3s] OK
* checking whether the namespace can be unloaded cleanly ... [3s/4s] OK
* checking loading without being on the library search path ... [3s/4s] 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 ... [12s/19s] OK
* checking Rd files ... [0s/1s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [16s/25s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [28s/42s] ERROR
  Running ‘testthat.R’ [28s/42s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(RGCCA)
  > 
  > test_check("RGCCA")
  [ FAIL 1 | WARN 0 | SKIP 49 | PASS 862 ]
  
  ══ Skipped tests (49) ══════════════════════════════════════════════════════════
  • On CRAN (6): 'test_print_call.R:11:3', 'test_print_call.R:24:3',
    'test_print_comp.R:10:3', 'test_print_comp.R:19:3', 'test_print_comp.R:28:3',
    'test_print_comp.R:37:3'
  • as.logical(Sys.getenv("TEST_SNAPSHOTS")) is not TRUE (42):
    'test_plot.rgcca.r:27:3', 'test_plot.rgcca.r:36:3', 'test_plot.rgcca.r:47:3',
    'test_plot.rgcca.r:55:3', 'test_plot.rgcca.r:65:3', 'test_plot.rgcca.r:72:3',
    'test_plot.rgcca.r:79:3', 'test_plot.rgcca.r:86:3', 'test_plot.rgcca.r:93:3',
    'test_plot.rgcca.r:100:3', 'test_plot.rgcca.r:109:3',
    'test_plot.rgcca_bootstrap.R:30:3', 'test_plot.rgcca_bootstrap.R:37:3',
    'test_plot.rgcca_cv.R:22:3', 'test_plot.rgcca_cv.R:29:3',
    'test_plot.rgcca_cv.R:36:3', 'test_plot.rgcca_permutation.r:23:3',
    'test_plot.rgcca_permutation.r:30:3', 'test_plot.rgcca_permutation.r:38:3',
    'test_plot.rgcca_permutation.r:49:3', 'test_plot.rgcca_stability.R:16:3',
    'test_print.rgcca.R:10:3', 'test_print.rgcca.R:19:3',
    'test_print.rgcca_bootstrap.R:13:3', 'test_print.rgcca_cv.R:17:3',
    'test_print.rgcca_cv.R:30:3', 'test_print.rgcca_permutation.R:17:3',
    'test_print.rgcca_stability.R:13:3', 'test_summary.rgcca.r:11:3',
    'test_summary.rgcca.r:20:3', 'test_summary.rgcca.r:30:3',
    'test_summary.rgcca.r:39:3', 'test_summary.rgcca.r:49:3',
    'test_summary.rgcca_bootstrap.r:12:3', 'test_summary.rgcca_bootstrap.r:21:3',
    'test_summary.rgcca_cv.R:17:3', 'test_summary.rgcca_cv.R:30:3',
    'test_summary.rgcca_cv.R:43:3', 'test_summary.rgcca_cv.R:56:3',
    'test_summary.rgcca_permutation.R:12:3',
    'test_summary.rgcca_permutation.R:24:3',
    'test_summary.rgcca_stability.R:13:3'
  • {gliomaData} is not installed (1): 'test_rgcca_predict.r:54:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_rgcca.R:203:1'): (code run outside of `test_that()`) ───────────
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'FactoMineR'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test_rgcca.R:203:1
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)
  
  [ FAIL 1 | WARN 0 | SKIP 49 | PASS 862 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [48s/75s] OK
* checking PDF version of manual ... [7s/9s] OK
* DONE
Status: 1 ERROR
* using check arguments '--no-clean-on-error '

* elapsed time (check, wall clock): 4:25