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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('sRACIPE_2.5.0.tar.gz','quit-with-status'=TRUE)"
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── Installing sRACIPE ──────────────────────────────────────────────────────────
✔ Package installed successfully
── sRACIPE session metadata ────────────────────────────────────────────────────
→ sourceDir: /tmp/RtmprHr941/file14701e2ce53e60/sRACIPE
→ BiocVersion: 3.24
→ Package: sRACIPE
→ PackageVersion: 2.5.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/sRACIPE.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmprHr941/file14701e2ce53e60/sRACIPE
→ installDir: /tmp/RtmprHr941/file14701e4563e151
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on sRACIPE ────────────────────────────────────────────────
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
ℹ NOTE: 'LazyData:' in the 'DESCRIPTION' should be set to false or removed
* Checking version number...
* Checking for version number mismatch...
* Checking version number validity...
* Checking R version dependency...
ℹ NOTE: Update R version dependency from 3.6.0 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: Sequencing,
Coverage
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 (14%).
* 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:
    • sRACIPE.Rmd
* Checking package installation calls in R code...
* Checking for library/require of sRACIPE...
* Checking coding practice...
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • methods.R (line 1077, column 23)
    • ...
    • simulateGRC.R (line 1001, column 20)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/heatmapSimilarity.R (line 53, column 26)
    • ...
    • R/utility.R (line 119, column 13)
ℹ NOTE: Avoid redundant 'stop' and 'warn*' in signal conditions
  Found in files:
    • R/heatmapSimilarity.R (line 144, column 13)
    • R/simulateGRC.R (line 510, column 10)
* Checking parsed R code in R directory, examples, vignettes...
* 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:
    • sracipeSimulate() (R/simulateGRC.R): 902 lines
    • sracipeHeatmapSimilarity() (R/heatmapSimilarity.R): 270 lines
    • _anonymous_.16() (R/methods.R): 86 lines
* Checking man page documentation...
ℹ NOTE: Consider adding runnable examples to man pages that document exported
objects.
  • densityPlot.Rd
  • RacipeSE-class.Rd
  • sracipeHeatmapSimilarity.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 19% of man
pages use at least one of these tags.
  Found in files:
    • sracipeCombineRacipeSE.Rd
    • ...
    • sracipeUniqueStates.Rd
ℹ NOTE: Use donttest instead of dontrun.
  Found in files:
    • sracipeCombineRacipeSE.Rd
    • ...
    • sracipeUniqueStates.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 (2%) are > 80 characters long.
  First few lines:
    • R/AllGenerics.R#L321 #' @param .object List A list returned ...
    • ...
    • vignettes/sRACIPE.Rmd#L317 Kohar V, Lu M (2018). “Role of noise and ...
ℹ NOTE: Consider 4 spaces instead of tabs; 1 lines (0%) contain tabs.
  First few lines:
    • R/methods.R#L363 arrows.to.type = arrow_type$color[ ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 1462 lines (34%) are
not.
  First few lines:
    • R/AllClasses.R#L12 contains = "Summar ...
    • ...
    • vignettes/sRACIPE.Rmd#L286 plots = FAL ...
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...
✖ ERROR: Unable to find your email in the Support Site: HTTP 404 Not Found.
── BiocCheck v1.49.4 results ───────────────────────────────────────────────────
✖ 1 ERRORS | ⚠ 0 WARNINGS | ℹ 18 NOTES
ℹ See the sRACIPE.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.