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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('epivizrData_1.41.0.tar.gz','quit-with-status'=TRUE)"
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── Installing epivizrData ──────────────────────────────────────────────────────
✔ Package installed successfully
── epivizrData session metadata ────────────────────────────────────────────────
→ sourceDir: /tmp/RtmpEfl9TD/file93ca0699c5a68/epivizrData
→ BiocVersion: 3.24
→ Package: epivizrData
→ PackageVersion: 1.41.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/epivizrData.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmpEfl9TD/file93ca0699c5a68/epivizrData
→ installDir: /tmp/RtmpEfl9TD/file93ca0145f8a69
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on epivizrData ────────────────────────────────────────────
* 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 3.4 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: DataImport
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...
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 (91%).
* 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:
    • epivizrData.Rmd
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/epivizrData.Rmd
* Checking package installation calls in R code...
* Checking for library/require of epivizrData...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • require() in R/register-methods.R (line 140, column 18)
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/EpivizBpData-class.R (line 40, column 9)
    • ...
    • R/EpivizFeatureData-class.R (line 48, column 14)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • register-methods.R (line 250, column 31)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/EpivizData-class.R (line 162, column 7)
    • ...
    • cat() in R/EpivizDataMgr-class.R (line 299, column 9)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/EpivizDataMgr-class.R (line 125, column 43)
    • ...
    • R/utils.R (line 89, column 16)
ℹ NOTE: Avoid redundant 'stop' and 'warn*' in signal conditions
  Found in files:
    • R/EpivizFeatureData-class.R (line 130, column 14)
* Checking parsed R code in R directory, examples, vignettes...
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 3 times)
  • suppressWarnings() in R/EpivizBpData-class.R (line 39, column 7)
  • suppressWarnings() in R/EpivizData-class.R (line 199, column 16)
  • suppressWarnings() in R/register-methods.R (line 144, column 20)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 4
functions greater than 50 lines.
  The longest 5 functions are:
    • get_rows() (R/EpivizData-class.R): 55 lines
    • ...
    • ahToMySQL() (R/utils.R): 55 lines
* Checking man page documentation...
! WARNING: Empty or missing \value sections found in man page(s).
  Found in files:
    • man/ahToMySQL.Rd
    • ...
    • man/dot-emptyEpivizSparseMeasurement.Rd
✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • ahToMySQL.Rd
    • dot-emptyEpivizMeasurement.Rd
    • dot-emptyEpivizSparseMeasurement.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 5% of man
pages use at least one of these tags.
  Found in files:
    • ahToMySQL.Rd
ℹ NOTE: Use donttest instead of dontrun.
  Found in files:
    • ahToMySQL.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; 53 lines (2%) are > 80 characters long.
  First few lines:
    • R/EpivizBpData-class.R#L104 "Auxiliary function for .mysql_inser ...
    • ...
    • vignettes/epivizrData.Rmd#L32 See `?epivizrData::register` for support
    ...
ℹ NOTE: Consider 4 spaces instead of tabs; 16 lines (1%) contain tabs.
  First few lines:
    • R/EpivizBlockData-class.R#L14 initialize=function(...) { ...
    • ...
    • R/EpivizTrackData-class.R#L19 c(.valid.EpivizTrackData.object(x)) ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 740 lines (35%) are
not.
  First few lines:
    • R/createMgr.R#L12 if (!is(server, "EpivizServer")) { ...
    • ...
    • R/utils.R#L130 annotation ...
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 ───────────────────────────────────────────────────
✖ 2 ERRORS | ⚠ 2 WARNINGS | ℹ 19 NOTES
ℹ See the epivizrData.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.