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### Running command:
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###   /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/Rscript -e "BiocCheck::BiocCheck('tximport_1.40.0.tar.gz','quit-with-status'=TRUE)"
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── Installing tximport ─────────────────────────────────────────────────────────
✔ Package installed successfully
── tximport session metadata ───────────────────────────────────────────────────
→ sourceDir: /tmp/RtmpnewBrS/file9a0ee44bf010f/tximport
→ BiocVersion: 3.23
→ Package: tximport
→ PackageVersion: 1.40.0
→ BiocCheckDir: /media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/meat/tximport.BiocCheck
→ BiocCheckVersion: 1.48.0
→ sourceDir: /tmp/RtmpnewBrS/file9a0ee44bf010f/tximport
→ installDir: /tmp/RtmpnewBrS/file9a0ee4f355bbd
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on tximport ───────────────────────────────────────────────
* 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...
* 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 'BugReports' field(s) in DESCRIPTION
* 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...
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:
    • tximport.Rmd
* Checking package installation calls in R code...
* Checking for library/require of tximport...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/summarizeToGene.R (line 123, column 15)
    • R/tximport.R (line 314, column 19)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/infReps.R (line 64, column 25)
    • R/tximport.R (line 341, column 28)
ℹ NOTE: Avoid the use of 'paste' in condition signals
  Found in files:
    • R/alevin.R (line 52, column 11)
    • ...
    • R/summarizeToGene.R (line 54, column 12)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 1 times)
  • suppressWarnings() in R/tximport.R (line 353, column 33)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 6
functions greater than 50 lines.
  The longest 5 functions are:
    • tximport() (R/tximport.R): 440 lines
    • ...
    • readAlevinInfReps() (R/alevin.R): 65 lines
* Checking man page documentation...
✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • makeCountsFromAbundance.Rd
    • summarizeToGene.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; 114 lines (6%) are > 80 characters long.
  First few lines:
    • R/alevin.R#L1 readAlevin <- function(files, dropInfRep ...
    • ...
    • vignettes/tximport.Rmd#L475 The following code will compute "divided ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 652 lines (33%) are
not.
  First few lines:
    • R/alevin.R#L2 dir <- sub("/alevin$","",dirname(files ...
    • ...
    • vignettes/tximport.Rmd#L525 ...
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 v1.48.0 results ───────────────────────────────────────────────────
✖ 2 ERRORS | ⚠ 1 WARNINGS | ℹ 11 NOTES
ℹ See the tximport.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.