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### Running command:
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###   /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/Rscript -e "BiocCheck::BiocCheck('LoomExperiment_1.30.0.tar.gz','quit-with-status'=TRUE)"
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── Installing LoomExperiment ───────────────────────────────────────────────────
✔ Package installed successfully
── LoomExperiment session metadata ─────────────────────────────────────────────
→ sourceDir: /tmp/RtmpLIfbyD/file7df2614cb020c/LoomExperiment
→ BiocVersion: 3.23
→ Package: LoomExperiment
→ PackageVersion: 1.30.0
→ BiocCheckDir: /media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/meat/LoomExperiment.BiocCheck
→ BiocCheckVersion: 1.48.0
→ sourceDir: /tmp/RtmpLIfbyD/file7df2614cb020c/LoomExperiment
→ installDir: /tmp/RtmpLIfbyD/file7df261d791cce
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on LoomExperiment ─────────────────────────────────────────
* 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 3.5.0 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...
✖ ERROR: Remove Maintainer field. Use Authors@R [cre] designation.
* 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 (62%).
* 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:
    • LoomExperiment.Rmd
* Checking package installation calls in R code...
* Checking for library/require of LoomExperiment...
* Checking coding practice...
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/SharedMethods.R (line 88, column 9)
    • ...
    • cat() in R/SharedMethods.R (line 106, column 9)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 2 times)
  • suppressWarnings() in R/LoomGraph-class.R (line 205, column 5)
  • suppressWarnings() in R/LoomGraph-class.R (line 228, column 5)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 2
functions greater than 50 lines.
  The longest 5 functions are:
    • _anonymous_.136() (R/import-method.R): 173 lines
    • .exportLoom.LoomExperiment() (R/export-method.R): 106 lines
* Checking man page documentation...
ℹ NOTE: Consider adding runnable examples to man pages that document exported
objects.
  • LoomFile-class.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; 10 lines (1%) are > 80 characters long.
  First few lines:
    • R/AllGenerics.R#L4 setGeneric('colGraphs<-', function(x, .. ...
    • ...
    • R/SingleCellLoomExperiment-class.R#L21 new('SingleCellLoomExperiment',
    sce, ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 16 lines (1%) are not.
  First few lines:
    • R/export-method.R#L178 matrix = assayNames(object) ...
    • ...
    • vignettes/LoomExperiment.Rmd#L123 ...
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 email is ok.
── BiocCheck v1.48.0 results ───────────────────────────────────────────────────
✖ 1 ERRORS | ⚠ 0 WARNINGS | ℹ 11 NOTES
ℹ See the LoomExperiment.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.