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### Running command:
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###   /home/rapidbuild/bbs-3.24-bioc-rapid/R/bin/Rscript -e "BiocCheck::BiocCheck('Rarr_2.1.7.tar.gz','quit-with-status'=TRUE)"
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── Installing Rarr ─────────────────────────────────────────────────────────────
✔ Package installed successfully
── Rarr session metadata ───────────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmp2zCstB/file1bc9f673f9f1fb/Rarr
→ BiocVersion: 3.24
→ Package: Rarr
→ PackageVersion: 2.1.7
→ BiocCheckDir: /media/volume/teran2_disk/rapidbuild/bbs-3.24-bioc-rapid/meat/Rarr.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmp2zCstB/file1bc9f673f9f1fb/Rarr
→ installDir: /tmp/Rtmp2zCstB/file1bc9f62b5147fc
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on Rarr ───────────────────────────────────────────────────
* 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 4.1.0 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...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* Checking for Bioconductor software dependencies...
! WARNING: No Bioconductor dependencies detected. Note that some infrastructure
packages may not have Bioconductor dependencies. For more information, reach
out to the Bioconductor community and/or consider a CRAN submission.
* Checking for pinned package versions in DESCRIPTION...
* Checking for 'fnd' role in Authors@R...
* 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:
    • Rarr.Rmd
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/features.Rmd
* Checking package installation calls in R code...
* Checking for library/require of Rarr...
* Checking coding practice...
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/read_metadata.R (line 117, column 5)
    • ...
    • cat() in R/read_metadata.R (line 237, column 3)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/version_mappings.R (line 54, column 34)
! WARNING: .Deprecated / .Defunct usage (found 2 times)
  • deprecate_warn() in R/Rarr-deprecated.R (line 27, column 14)
  • deprecate_warn() in R/Rarr-deprecated.R (line 45, column 14)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid '<<-' if possible (found 1 times)
  • <<- in R/read_data.R (line 151, column 16)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 14
functions greater than 50 lines.
  The longest 5 functions are:
    • .read_array_metadata() (R/read_metadata.R): 112 lines
    • ...
    • .convert_metadata_version() (R/version_mappings.R): 95 lines
* Checking man page documentation...
! WARNING: Empty or missing \value sections found in man page(s).
  Found in files:
    • man/ZarrArray-deprecated.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 9% of man
pages use at least one of these tags.
  Found in files:
    • read_zarr_array.Rd
    • zarr_overview.Rd
* 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; 53 lines (2%) are > 80 characters long.
  First few lines:
    • R/codecs_array_array.R#L3 # FIXME: we do two copies here (aperm ...
    • ...
    • vignettes/Rarr.Rmd#L132 s3_address <- "https://uk1s3.embassy.ebi ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 1171 lines (36%) are
not.
  First few lines:
    • R/codecs_array_array.R#L3 # FIXME: we do two copies here (aperm ...
    • ...
    • vignettes/Rarr.Rmd#L245 index = list(1, 1:20) ...
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 | ⚠ 3 WARNINGS | ℹ 11 NOTES
ℹ See the Rarr.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.