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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('Maaslin2_1.27.0.tar.gz','quit-with-status'=TRUE)"
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── Installing Maaslin2 ─────────────────────────────────────────────────────────
✔ Package installed successfully
── Maaslin2 session metadata ───────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmpfyvtto/filecb5fa23182109/Maaslin2
→ BiocVersion: 3.24
→ Package: Maaslin2
→ PackageVersion: 1.27.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/Maaslin2.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmpfyvtto/filecb5fa23182109/Maaslin2
→ installDir: /tmp/Rtmpfyvtto/filecb5fa2bba34c9
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on Maaslin2 ───────────────────────────────────────────────
* 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 3.6 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...
* 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...
ℹ NOTE: Consider adding the maintainer's ORCID iD in 'Authors@R' with
'comment=c(ORCID="...")'
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (8%).
* 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:
    • maaslin2.Rmd
* Checking package installation calls in R code...
* Checking for library/require of Maaslin2...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • require() in R/fit.R (line 13, column 36)
    • ...
    • require() in R/viz.R (line 32, column 36)
* Checking coding practice...
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • Maaslin2.R (line 68, column 64)
    • viz.R (line 103, column 26)
    • viz.R (line 110, column 30)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • print() in R/Maaslin2.R (line 425, column 13)
    • ...
    • print() in R/viz.R (line 546, column 40)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/Maaslin2.R (line 832, column 34)
    • ...
    • R/viz.R (line 189, column 11)
ℹ NOTE: Avoid the use of 'paste' in condition signals
  Found in files:
    • R/fit.R (line 235, column 27)
    • ...
    • R/Maaslin2.R (line 1193, column 13)
* 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 5
functions greater than 50 lines.
  The longest 5 functions are:
    • Maaslin2() (R/Maaslin2.R): 830 lines
    • ...
    • _anonymous_.217() (R/fit.R): 72 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; 73 lines (3%) are > 80 characters long.
  First few lines:
    • R/fit.R#L178 para <-as.data.frame(pscl_ ...
    • ...
    • vignettes/maaslin2.Rmd#L301 * Answer: Installing the R package w ...
ℹ NOTE: Consider 4 spaces instead of tabs; 5 lines (0%) contain tabs.
  First few lines:
    • R/fit.R#L43 formula <- update(random_effects_fo ...
    • ...
    • R/fit.R#L181 } ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 103 lines (4%) are
not.
  First few lines:
    • R/fit.R#L72 ranef_function <- lme4::ra ...
    • ...
    • R/viz.R#L553 saved_plots[[label]] <- NU ...
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.
✖ ERROR: Add package to Watched Tags in your Support Site profile; visit
https://support.bioconductor.org/accounts/edit/profile
── BiocCheck v1.49.4 results ───────────────────────────────────────────────────
✖ 1 ERRORS | ⚠ 1 WARNINGS | ℹ 13 NOTES
ℹ See the Maaslin2.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.