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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('weitrix_1.25.0.tar.gz','quit-with-status'=TRUE)"
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── Installing weitrix ──────────────────────────────────────────────────────────
✔ Package installed successfully
── weitrix session metadata ────────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmp0Z0gnA/file153b26649a1753/weitrix
→ BiocVersion: 3.24
→ Package: weitrix
→ PackageVersion: 1.25.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/weitrix.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmp0Z0gnA/file153b26649a1753/weitrix
→ installDir: /tmp/Rtmp0Z0gnA/file153b264290b4b2
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on weitrix ────────────────────────────────────────────────
* 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 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 'URL', 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (35%).
* 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:
    • V4_airway.Rmd
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/V2_tail_length.Rmd
    • ...
    • vignettes/V5_slam_seq.Rmd
* Checking package installation calls in R code...
* Checking for library/require of weitrix...
* Checking coding practice...
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat in R/calibrate.R (line 543, column 22)
    • ...
    • cat in R/calibrate.R (line 631, column 50)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/testing.R (line 303, column 21)
! WARNING: Avoid T/F variables; If logical, use TRUE/FALSE
  Found 4 times:
    • F in R/testing.R (line 297, column 5)
    • ...
    • F in R/testing.R (line 372, column 27)
* 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 9
functions greater than 50 lines.
  The longest 5 functions are:
    • weitrix_confects() (R/testing.R): 203 lines
    • ...
    • weitrix_sd_confects() (R/perturbation.R): 82 lines
* Checking man page documentation...
* 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; 192 lines (4%) are > 80 characters long.
  First few lines:
    • R/calibrate.R#L417 data$mu <- as.vector(comp$row %*% t( ...
    • ...
    • vignettes/V5_slam_seq.Rmd#L173 download.file("https://www.ncbi.nlm.nih.
    ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 2 lines (0%) are not.
  First few lines:
    • vignettes/V2_tail_length.Rmd#L256 ylab="confect (black) and effect (gra
    ...
    • vignettes/V2_tail_length.Rmd#L273 ylab="confect (black) and effect (gra
    ...
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 | ⚠ 1 WARNINGS | ℹ 13 NOTES
ℹ See the weitrix.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.