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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:CoRegFlux.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings CoRegFlux_1.8.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/CoRegFlux.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CoRegFlux/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CoRegFlux’ version ‘1.8.0’
* 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 ‘CoRegFlux’ can be installed ... WARNING
Found the following significant warnings:
  Warning: Package 'CoRegFlux' is deprecated and will be removed from Bioconductor
See ‘/home/biocbuild/bbs-3.13-bioc/meat/CoRegFlux.Rcheck/00install.out’ 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 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 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
predict_linear_model_influence 19.503  0.788  14.772
ODCurveToFluxCurves            15.396  0.163  15.565
ODCurveToMetabolicGeneCurves    7.152  0.160   7.312
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘Test.R’
 ERROR
Running the tests in ‘tests/Test.R’ failed.
Last 13 lines of output:
  Error (test_MetabolicModelFunctions.R:13:6): Metabolites names to model names works and return a
                       data.frame
  Error in `convert_metabolites_to_model_names(metabolites = metabolites, 
      model = iMM904)`: could not find function "convert_metabolites_to_model_names"
  Backtrace:
   1. testthat::expect_true(...) test_MetabolicModelFunctions.R:13:5
   4. base::is.data.frame(...)
  ────────────────────────────────────────────────────────────────────────────────
  
  ══ Results ═════════════════════════════════════════════════════════════════════
  Duration: 32.3 s
  
  [ FAIL 4 | WARN 0 | SKIP 0 | PASS 29 ]
  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, 1 WARNING
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/CoRegFlux.Rcheck/00check.log’
for details.