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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('ABarray_1.81.0.tar.gz','quit-with-status'=TRUE)"
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── Installing ABarray ──────────────────────────────────────────────────────────
✔ Package installed successfully
── ABarray session metadata ────────────────────────────────────────────────────
→ sourceDir: /tmp/RtmpiRaIEg/file467e86da50ada/ABarray
→ BiocVersion: 3.24
→ Package: ABarray
→ PackageVersion: 1.81.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/ABarray.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmpiRaIEg/file467e86da50ada/ABarray
→ installDir: /tmp/RtmpiRaIEg/file467e84ce2f933
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on ABarray ────────────────────────────────────────────────
* 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...
* 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:
GeneExpression, TissueMicroarray, Normalization, KEGG, Clustering, GUI
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 'URL', 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (25%).
* 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:
    • ABarray.Rnw
    • ABarrayGUI.Rnw
! WARNING: Evaluate more vignette chunks.
ℹ 1 out of 1 code chunks = 100% unevaluated
ℹ 
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/ABarray.Rnw
    • vignettes/ABarrayGUI.Rnw
* Checking package installation calls in R code...
* Checking for library/require of ABarray...
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/doANOVA.R (line 47, column 14)
    • R/doANOVA.R (line 95, column 14)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • ABarray.R (line 79, column 12)
    • ...
    • snSummary.R (line 19, column 18)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/ABarray.R (line 98, column 5)
    • ...
    • print() in R/qnNormalize.R (line 86, column 7)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/ABarray.R (line 277, column 10)
    • ...
    • R/matrixPlot.R (line 29, column 10)
* 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 15
functions greater than 50 lines.
  The longest 5 functions are:
    • _anonymous_.6() (R/ABarray.R): 592 lines
    • ...
    • doANOVA() (R/doANOVA.R): 136 lines
* Checking man page documentation...
Warning in fun(libname, pkgname) : couldn't connect to display ":1.0"
✖ ERROR: At least 80% of man pages documenting exported objects must have
runnable examples.
  The following pages do not:
    • ABarray.Rd
    • ...
    • snSummary.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; 310 lines (6%) are > 80 characters long.
  First few lines:
    • R/ABarray.R#L6 function(dataFile, designFile, group, te ...
    • ...
    • vignettes/ABarrayGUI.Rnw#L78 GUI window starts (Figure~\ref{fig:ab170 ...
ℹ NOTE: Consider 4 spaces instead of tabs; 249 lines (5%) contain tabs.
  First few lines:
    • R/ABarray.R#L194 #- May not be same as in dat ...
    • ...
    • vignettes/ABarrayGUI.Rnw#L56 For details on reading vignettes, see t ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 1671 lines (31%) are
not.
  First few lines:
    • R/ABarray.R#L7 if(missing(designFile)) { ...
    • ...
    • vignettes/ABarrayGUI.Rnw#L65 gene expression data ...
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 15 NOTES
ℹ See the ABarray.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.