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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:EWCE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings EWCE_1.8.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/EWCE.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.3 (clang-1403.0.22.14.1)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EWCE/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘EWCE’ version ‘1.8.2’
* 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 ‘EWCE’ 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 R 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                             user system elapsed
generate_bootstrap_plots                   44.627  0.881  60.697
controlled_geneset_enrichment              41.639  1.851  63.709
merged_ewce                                30.108  1.152  43.494
generate_bootstrap_plots_for_transcriptome 28.149  1.069  39.545
filter_nonorthologs                        24.944  0.739  34.690
filter_genes_without_1to1_homolog          24.106  0.673  35.003
bootstrap_enrichment_test                  19.270  0.652  26.019
ewce_expression_data                       18.640  0.907  28.063
check_ewce_genelist_inputs                 16.750  0.517  23.524
sct_normalize                              15.653  0.441  22.086
add_res_to_merging_list                    14.083  1.532  20.169
filter_ctd_genes                           13.529  0.369  20.330
merge_ctd                                  12.265  0.616  17.740
standardise_ctd                            12.503  0.324  16.872
merge_sce                                   9.543  0.342  13.711
fix_bad_mgi_symbols                         8.548  0.594  13.559
ctd_to_sce                                  8.485  0.311  13.703
bin_specificity_into_quantiles              8.386  0.298  11.174
bin_columns_into_quantiles                  8.331  0.283  11.091
plot_ctd                                    8.116  0.201  11.093
drop_uninformative_genes                    6.084  0.821  10.751
generate_celltype_data                      6.593  0.256   9.176
get_celltype_table                          5.116  0.245   7.002
merge_two_expfiles                          4.856  0.277   7.015
* 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:
    4.     └─ExperimentHub (local) .local(x, i, j = j, ...)
    5.       ├─methods::callNextMethod(x, i, j, ..., force = force, verbose = verbose)
    6.       │ └─base::eval(call, callEnv)
    7.       │   └─base::eval(call, callEnv)
    8.       └─AnnotationHub (local) .nextMethod(x, i, j, ..., force = force, verbose = verbose)
    9.         └─AnnotationHub (local) .local(x, i, j = j, ...)
   10.           └─AnnotationHub:::.Hub_get1(x[idx], force = force, verbose = verbose)
   11.             └─base::tryCatch(...)
   12.               └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   13.                 └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   14.                   └─value[[3L]](cond)
  
  [ FAIL 3 | WARN 38 | SKIP 0 | PASS 111 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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-3.17-bioc/meat/EWCE.Rcheck/00check.log’
for details.