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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('rsbml_2.71.0.tar.gz','quit-with-status'=TRUE)"
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── Installing rsbml ────────────────────────────────────────────────────────────
✔ Package installed successfully
── rsbml session metadata ──────────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmps3OGCx/file125a7e6605e4e8/rsbml
→ BiocVersion: 3.24
→ Package: rsbml
→ PackageVersion: 2.71.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/rsbml.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmps3OGCx/file125a7e6605e4e8/rsbml
→ installDir: /tmp/Rtmps3OGCx/file125a7e688ee170
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on rsbml ──────────────────────────────────────────────────
* 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 2.6.0 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...
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/Rtmps3OGCx/file125a7e6605e4e8/rsbml/man/math.Rd'
ℹ NOTE: Consider adding these automatically suggested biocViews: SystemsBiology
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...
✖ 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...
ℹ Bioconductor dependencies found in Imports & Depends (50%).
* 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...
! WARNING: Use RMarkdown instead of Sweave 'Rnw' vignettes.
  Rnw vignette(s) found:
    • quick-start.Rnw
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/quick-start.Rnw
* Checking package installation calls in R code...
* Checking for library/require of rsbml...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/AAASBase.R (line 40, column 14)
    • ...
    • R/utils.R (line 18, column 23)
ℹ NOTE: Avoid redundant 'stop' and 'warn*' in signal conditions
  Found in files:
    • R/problems.R (line 60, column 52)
    • ...
    • R/problems.R (line 72, column 55)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid '<<-' if possible (found 1 times)
  • <<- in R/Model.R (line 232, column 14)
! WARNING: Avoid 'Sys.setenv' (found 2 times)
  • Sys.setenv() in R/zzz.R (line 5, column 6)
  • Sys.setenv() in R/zzz.R (line 7, column 14)
* 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:
    • .simulate.SBML() (R/simulate.R): 83 lines
    • _anonymous_.234() (R/simulate.R): 61 lines
* Checking man page documentation...
✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • BoundingBox-class.Rd
    • ...
    • UnitDefinition-class.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 3% of man
pages use at least one of these tags.
  Found in files:
    • SBML-class.Rd
    • SBMLDocument-class.Rd
ℹ NOTE: Use donttest instead of dontrun.
  Found in files:
    • SBML-class.Rd
    • SBMLDocument-class.Rd
* Checking package NEWS...
ℹ NOTE: More than one NEWS file found.See ?news for recognition ordering.
  Please remove one of the following:
    • SBML_odeSolver-1.7.0beta/NEWS
    • rsbml/NEWS
* Checking unit tests...
ℹ NOTE: Consider adding unit tests. We strongly encourage them. See
https://contributions.bioconductor.org/tests.html
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source, and
vignette source...
ℹ NOTE: Consider shorter lines; 504 lines (8%) are > 80 characters long.
  First few lines:
    • R/AAASBase.R#L2 annotation = "character", cvTerms = "l ...
    • ...
    • vignettes/quick-start.Rnw#L99 back to XML in two different ways: direc
    ...
ℹ NOTE: Consider 4 spaces instead of tabs; 83 lines (1%) contain tabs.
  First few lines:
    • R/Unit.R#L33 .unitKinds <- c("ampere", "farad", "joul ...
    • ...
    • man/UnitDefinition-class.Rd#L55 } ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 1917 lines (31%) are
not.
  First few lines:
    • R/AAADescribable.R#L6 cat(describe(object), sep = "\n") ...
    • ...
    • vignettes/quick-start.Rnw#L94 error = function(err) err$msg) ...
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 ───────────────────────────────────────────────────
✖ 3 ERRORS | ⚠ 2 WARNINGS | ℹ 17 NOTES
ℹ See the rsbml.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.