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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('timecourse_1.85.0.tar.gz','quit-with-status'=TRUE)"
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── Installing timecourse ───────────────────────────────────────────────────────
✔ Package installed successfully
── timecourse session metadata ─────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmp7oIoh6/file14caf97d458a4b/timecourse
→ BiocVersion: 3.24
→ Package: timecourse
→ PackageVersion: 1.85.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/timecourse.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/Rtmp7oIoh6/file14caf97d458a4b/timecourse
→ installDir: /tmp/Rtmp7oIoh6/file14caf95e6eecd2
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on timecourse ─────────────────────────────────────────────
* 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 2.1.1 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...
✖ ERROR: Remove Maintainer field. Use Authors@R [cre] designation.
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
ℹ NOTE: 'Date:' field format is not 'YYYY-MM-DD': 2007-6-3
ℹ NOTE: Provide 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (33%).
* 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:
    • timecourse.Rnw
ℹ NOTE: Vignette(s) found with missing chunk labels
  Found in files:
    • timecourse.Rnw
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/timecourse.Rnw
* Checking package installation calls in R code...
* Checking for library/require of timecourse...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/matrix.cov.R (line 49, column 35)
    • ...
    • R/plotProfile.R (line 92, column 16)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • abs2ratio.R (line 7, column 13)
    • ...
    • plotProfile.R (line 279, column 28)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/mb.1D.R (line 41, column 10)
    • ...
    • cat() in R/mb.paired.R (line 96, column 14)
ℹ NOTE: Avoid redundant 'stop' and 'warn*' in signal conditions
  Found in files:
    • R/mb.paired.R (line 55, column 18)
    • ...
    • R/mb.paired.R (line 99, column 19)
* 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:
    • mb.paired() (R/mb.paired.R): 299 lines
    • ...
    • mb.MANOVA() (R/mb.MANOVA.R): 213 lines
* Checking man page documentation...
! WARNING: Empty or missing \value sections found in man page(s).
  Found in files:
    • man/plotProfile.Rd
✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • abs2ratio.Rd
    • ...
    • univ.func.Rd
* Checking package NEWS...
ℹ NOTE: Consider adding a NEWS file, so your package news will be included in
Bioconductor release announcements.
* 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; 312 lines (12%) are > 80 characters long.
  First few lines:
    • R/matrix.cov.R#L35 if(k==1) size[i] <- sum(apply(t ...
    • ...
    • vignettes/timecourse.Rnw#L317 plotProfile(out2, type="b", gnames=gname
    ...
ℹ NOTE: Consider 4 spaces instead of tabs; 2 lines (0%) contain tabs.
  First few lines:
    • R/classes.R#L1 # CLASSES.R ...
    • man/mb.long.Rd#L27 those whose expected temporal profiles ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 880 lines (34%) are
not.
  First few lines:
    • R/abs2ratio.R#L15 ...
    • ...
    • vignettes/timecourse.Rnw#L225 res ...
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 ───────────────────────────────────────────────────
✖ 2 ERRORS | ⚠ 2 WARNINGS | ℹ 17 NOTES
ℹ See the timecourse.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.