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### Running command:
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###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:mistyR.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings mistyR_1.6.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/mistyR.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘mistyR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mistyR’ version ‘1.6.1’
* 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 ‘mistyR’ 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 loading without being on the library search path ... 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 ... NOTE
aggregate_results: no visible binding for global variable ‘.data’
aggregate_results_subset: no visible binding for global variable
  ‘.data’
bagged_mars_model: no visible binding for global variable ‘.data’
collect_results : <anonymous>: no visible binding for global variable
  ‘.data’
collect_results: no visible binding for global variable ‘.data’
collect_results : <anonymous> : <anonymous>: no visible binding for
  global variable ‘.data’
extract_signature: no visible binding for global variable ‘.data’
extract_signature : <anonymous>: no visible binding for global variable
  ‘.data’
gradient_boosting_model: no visible binding for global variable ‘.data’
linear_model: no visible binding for global variable ‘.data’
mars_model: no visible binding for global variable ‘.data’
mlp_model: no visible binding for global variable ‘.data’
plot_contrast_heatmap: no visible binding for global variable ‘.data’
plot_contrast_results: no visible binding for global variable ‘.data’
plot_contrast_results : <anonymous>: no visible binding for global
  variable ‘.data’
plot_improvement_stats: no visible binding for global variable ‘.data’
plot_interaction_communities: no visible binding for global variable
  ‘.data’
plot_interaction_heatmap: no visible binding for global variable
  ‘.data’
plot_view_contributions: no visible binding for global variable ‘.data’
run_misty : <anonymous>: no visible binding for global variable ‘.data’
svm_model: no visible binding for global variable ‘.data’
Undefined global functions or variables:
  .data
* 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
collect_results        136.559  6.082 142.042
reexports               46.291  1.876  48.000
run_misty               46.001  2.032  47.872
remove_views            25.937  0.210  26.147
add_paraview            22.674  0.148  22.822
add_juxtaview            6.286  0.128   6.414
create_view              5.564  0.016   5.580
plot_improvement_stats   4.992  0.443   5.192
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘mistyR.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.16-bioc/meat/mistyR.Rcheck/00check.log’
for details.