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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('structToolbox_1.25.0.tar.gz','quit-with-status'=TRUE)"
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── Installing structToolbox ────────────────────────────────────────────────────
✔ Package installed successfully
── structToolbox session metadata ──────────────────────────────────────────────
→ sourceDir: /tmp/Rtmp8T5s6q/file1481b2192d74ac/structToolbox
→ BiocVersion: 3.24
→ Package: structToolbox
→ PackageVersion: 1.25.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/structToolbox.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmp8T5s6q/file1481b2192d74ac/structToolbox
→ installDir: /tmp/Rtmp8T5s6q/file1481b290cde5b
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on structToolbox ──────────────────────────────────────────
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
* Checking version number...
* Checking for version number mismatch...
* Checking version number validity...
* Checking R version dependency...
ℹ NOTE: Update R version dependency from 4.0 to 4.6.0
* Checking package size...
* Checking individual file sizes...
* Checking biocViews...
* Checking that biocViews are present...
* Checking package type based on biocViews...
→ Software
* Checking for non-trivial biocViews...
* Checking that biocViews come from the same category...
* Checking biocViews validity...
* Checking for recommended biocViews...
ℹ NOTE: Consider adding these automatically suggested biocViews: Regression
ℹ Search 'biocViews' at https://contributions.bioconductor.org
* Checking build system compatibility...
* Checking for proper Description: field...
* Checking if DESCRIPTION is well formatted...
* Checking for whitespace in DESCRIPTION field names...
* Checking if 'Package:' field matches directory / tarball...
* Checking for Version: field...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
ℹ NOTE: Provide 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (17%).
* Checking for pinned package versions in DESCRIPTION...
* Checking for 'fnd' role in Authors@R...
ℹ NOTE: No 'fnd' role found in Authors@R. If the work is supported by a grant,
consider adding the 'fnd' role to the list of authors.
* Checking NAMESPACE...
* Checking .Rbuildignore...
* Checking for stray BiocCheck output folders...
* Checking vignette directory...
ℹ NOTE: Vignette(s) found with missing chunk labels
  Found in files:
    • data_analysis_omics_using_the_structtoolbox.Rmd
Warning in checkVigEvalAllFalse(.BiocPackage) :
  More than one `opts_chunk$set()` in /tmp/Rtmp8T5s6q/file1481b2192d74ac/structToolbox/vignettes/data_analysis_omics_using_the_structtoolbox.Rmd
* Checking package installation calls in R code...
* Checking for library/require of structToolbox...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/anova_class.R (line 100, column 15)
    • ...
    • R/mixed_effect_class.R (line 117, column 17)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • anova_class.R (line 166, column 19)
    • ...
    • wilcox_test_class.R (line 192, column 19)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/anova_class.R (line 10, column 7)
    • ...
    • R/zzz.R (line 25, column 15)
! WARNING: Avoid T/F variables; If logical, use TRUE/FALSE
  Found 18 times:
    • F in R/blank_filter_class.R (line 88, column 71)
    • ...
    • F in R/resample_class.R (line 309, column 34)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 1 times)
  • suppressWarnings() in R/forward_selection_by_rank_class.R (line 212, column
  14)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 22
functions greater than 50 lines.
  The longest 5 functions are:
    • definition() (R/scatter_chart_class.R): 193 lines
    • ...
    • definition() (R/mixed_effect_class.R): 96 lines
* Checking man page documentation...
* Checking package NEWS...
* Checking unit tests...
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and
vignette source...
ℹ NOTE: Consider shorter lines; 636 lines (5%) are > 80 characters long.
  First few lines:
    • R/anova_class.R#L80 within=which(var_names %in% all. ...
    • ...
    • vignettes/data_analysis_omics_using_the_structtoolbox.Rmd#L39 The latest
    version of `structToolbox` co ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 1055 lines (8%) are
not.
  First few lines:
    • R/balanced_accuracy_class.R#L30 signature=c('balanced_accuracy ...
    • ...
    • vignettes/data_analysis_omics_using_the_structtoolbox.Rmd#L66 ...
ℹ See https://contributions.bioconductor.org/r-code.html
ℹ See styler package: https://cran.r-project.org/package=styler as described in
the BiocCheck vignette.
* Checking if package already exists in CRAN...
* Checking for bioc-devel mailing list subscription...
ℹ NOTE: Cannot determine whether maintainer is subscribed to the Bioc-Devel
mailing list (requires admin credentials). Subscribe here:
https://stat.ethz.ch/mailman/listinfo/bioc-devel
* Checking for support site registration...
ℹ Maintainer is registered at support site.
ℹ Package is in the Support Site Watched Tags.
── BiocCheck v1.49.4 results ───────────────────────────────────────────────────
✖ 0 ERRORS | ⚠ 1 WARNINGS | ℹ 13 NOTES
ℹ See the structToolbox.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.