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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('EnrichDO_1.7.0.tar.gz','quit-with-status'=TRUE)"
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── Installing EnrichDO ─────────────────────────────────────────────────────────
✔ Package installed successfully
── EnrichDO session metadata ───────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmpjt1EU7/file877cf4884dcd0/EnrichDO
→ BiocVersion: 3.24
→ Package: EnrichDO
→ PackageVersion: 1.7.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/EnrichDO.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmpjt1EU7/file877cf4884dcd0/EnrichDO
→ installDir: /tmp/Rtmpjt1EU7/file877cf4737b490
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on EnrichDO ───────────────────────────────────────────────
* 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 4.0.0 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 if 'Package:' field matches directory / tarball...
* Checking for Version: field...
ℹ NOTE: Consider adding the maintainer's ORCID iD in 'Authors@R' with
'comment=c(ORCID="...")'
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
ℹ NOTE: Provide 'URL', 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (27%).
* 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:
    • EnrichDO.Rmd
* Checking package installation calls in R code...
* Checking for library/require of EnrichDO...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/EnrichDO_function.R (line 69, column 25)
    • R/EnrichDO_function.R (line 72, column 25)
    • R/EnrichDO_visualization.R (line 159, column 16)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • EnrichDO_visualization.R (line 32, column 16)
    • ...
    • EnrichDO_visualization.R (line 375, column 97)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid '<<-' if possible (found 6 times)
  • <<- in R/EnrichDO_algorithm.R (line 222, column 12)
  • ...
  • <<- in R/EnrichDO_visualization.R (line 238, column 9)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 3
functions greater than 50 lines.
  The longest 5 functions are:
    • drawGraphViz() (R/EnrichDO_visualization.R): 120 lines
    • computeTermSig() (R/EnrichDO_algorithm.R): 92 lines
    • doEnrich() (R/EnrichDO_function.R): 84 lines
* Checking man page documentation...
* Checking package NEWS...
ℹ NOTE: Consider adding a NEWS file, so your package news will be included in
Bioconductor release announcements.
* 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; 115 lines (9%) are > 80 characters long.
  First few lines:
    • R/data.R#L3 #' A dataset includes 4831 DO terms of h ...
    • ...
    • vignettes/EnrichDO.Rmd#L243 data <- read.delim(file.path(system.file ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 392 lines (30%) are
not.
  First few lines:
    • R/EnrichDO_algorithm.R#L16 if (!exists(".EnrichDOenv")) { ...
    • ...
    • vignettes/EnrichDO.Rmd#L233 fontsize_row = 8 ...
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 | ⚠ 0 WARNINGS | ℹ 13 NOTES
ℹ See the EnrichDO.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.