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### Running command:
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###   /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/Rscript -e "BiocCheck::BiocCheck('enrichplot_1.32.0.tar.gz','quit-with-status'=TRUE)"
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── Installing enrichplot ───────────────────────────────────────────────────────
✔ Package installed successfully
── enrichplot session metadata ─────────────────────────────────────────────────
→ sourceDir: /tmp/RtmpZunW2I/file77c307108fe6/enrichplot
→ BiocVersion: 3.23
→ Package: enrichplot
→ PackageVersion: 1.32.0
→ BiocCheckDir: /media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/meat/enrichplot.BiocCheck
→ BiocCheckVersion: 1.48.0
→ sourceDir: /tmp/RtmpZunW2I/file77c307108fe6/enrichplot
→ installDir: /tmp/RtmpZunW2I/file77c303d706099
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on enrichplot ─────────────────────────────────────────────
* 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 4.2.0 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...
* Checking build system compatibility...
* Checking for proper Description: field...
* Checking if DESCRIPTION is well formatted...
* Checking for whitespace in DESCRIPTION field names...
* Checking that Package field matches directory/tarball name...
* Checking for Version: field...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (12%).
* 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...
! WARNING: Quarto vignette found but 'SystemRequirements' field not in
DESCRIPTION.
* Checking package installation calls in R code...
* Checking for library/require of enrichplot...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • require() in R/dotplot.R (line 486, column 9)
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/cnetplot.R (line 194, column 21)
    • ...
    • R/treeplot.R (line 526, column 23)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • data_utils.R (line 73, column 25)
    • ...
    • volplot.R (line 36, column 39)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/color_utils.R (line 20, column 12)
    • ...
    • R/volplot.R (line 23, column 36)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 3 times)
  • suppressMessages() in R/dotplot.R (line 75, column 18)
  • suppressMessages() in R/dotplot.R (line 201, column 18)
  • suppressWarnings() in R/method-fortify.R (line 138, column 28)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 27
functions greater than 50 lines.
  The longest 5 functions are:
    • gseaplot2() (R/gseaplot.R): 228 lines
    • ...
    • dotplot.compareClusterResult() (R/dotplot.R): 108 lines
* Checking man page documentation...
! WARNING: Empty or missing \value sections found in man page(s).
  Found in files:
    • man/cnetplot.Rd
    • man/pairwise_termsim.Rd

✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • autofacet.Rd
    • ...
    • treeplot.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 23% of man
pages use at least one of these tags.
  Found in files:
    • dotplot.Rd
    • ...
    • treeplot.Rd
ℹ NOTE: Use donttest instead of dontrun.
  Found in files:
    • dotplot.Rd
    • ...
    • treeplot.Rd
* Checking package NEWS...
* Checking unit tests...
ℹ NOTE: Consider adding unit tests. We strongly encourage them. See
https://contributions.bioconductor.org/tests.html
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and
vignette source...
ℹ NOTE: Consider shorter lines; 84 lines (1%) are > 80 characters long.
  First few lines:
    • R/AllGenerics.R#L18 #' # use `showCategory` to select th ...
    • ...
    • vignettes/enrichplot.qmd#L19 Please go to <https://yulab-smu.github.i ...
ℹ NOTE: Consider 4 spaces instead of tabs; 7 lines (0%) contain tabs.
  First few lines:
    • R/AllGenerics.R#L183 #' library(clusterProfiler) ...
    • ...
    • R/upsetplot.R#L66 ggupset::scale_x_upset(order_by = "freq ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 34 lines (1%) are not.
  First few lines:
    • R/densityplot.R#L30 logFC = gs, ...
    • ...
    • R/upsetplot.R#L83 foldChange = x@gen ...
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.
✖ ERROR: Add package to Watched Tags in your Support Site profile; visit
https://support.bioconductor.org/accounts/edit/profile
── BiocCheck v1.48.0 results ───────────────────────────────────────────────────
✖ 2 ERRORS | ⚠ 3 WARNINGS | ℹ 14 NOTES
ℹ See the enrichplot.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.