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### Running command:
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###   /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/Rscript -e "BiocCheck::BiocCheck('multtest_2.68.0.tar.gz','quit-with-status'=TRUE)"
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── Installing multtest ─────────────────────────────────────────────────────────
✔ Package installed successfully
── multtest session metadata ───────────────────────────────────────────────────
→ sourceDir: /tmp/Rtmpcex08r/file849387478c36b/multtest
→ BiocVersion: 3.23
→ Package: multtest
→ PackageVersion: 2.68.0
→ BiocCheckDir: /media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/meat/multtest.BiocCheck
→ BiocCheckVersion: 1.48.0
→ sourceDir: /tmp/Rtmpcex08r/file849387478c36b/multtest
→ installDir: /tmp/Rtmpcex08r/file849387bdf2bc9
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on multtest ───────────────────────────────────────────────
* 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 2.10 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:
GeneExpression, KEGG, Regression, Survival, GUI, GPU
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 that Package field matches directory/tarball name...
* 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 (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...
✖ ERROR: No vignette sources in vignettes/ directory.
* Checking package installation calls in R code...
* Checking for library/require of multtest...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • library() in R/EBMTP.R (line 299, column 30)
    • ...
    • require() in R/zzz.R (line 694, column 21)
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/nulldistn_c.R (line 133, column 16)
    • ...
    • R/zzz.R (line 636, column 17)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • EBMTP.R (line 49, column 34)
    • ...
    • zzz.R (line 689, column 22)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/EBMTP.R (line 373, column 5)
    • ...
    • cat() in R/nulldistn_c.R (line 193, column 5)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/EBMTP.R (line 209, column 28)
    • ...
    • R/zzz.R (line 441, column 52)
ℹ NOTE: Avoid the use of 'paste' in condition signals
  Found in files:
    • R/EBMTP.R (line 12, column 17)
    • ...
    • R/zzz.R (line 297, column 36)
ℹ NOTE: Avoid redundant 'stop' and 'warn*' in signal conditions
  Found in files:
    • R/mt.func.R (line 180, column 20)
    • R/mt.func.R (line 198, column 22)
! WARNING: Avoid T/F variables; If logical, use TRUE/FALSE
  Found 1 times:
    • T in R/ICQTNullDist.R (line 224, column 29)
! WARNING: Remove set.seed usage (found 1 times)
  • set.seed() in R/nulldistn_c.R (line 21, column 24)
* Checking parsed R code in R directory, examples, vignettes...
ℹ Found @ in man/fwer2gfwer.Rd
ℹ Found @ in man/get.index.Rd
ℹ Found @ in man/Hsets.Rd
ℹ Found @ in man/MTP.Rd
ℹ NOTE: Use accessors; don't access S4 class slots via '@' in
examples/vignettes.
ℹ NOTE: Avoid 'suppressWarnings'/'*Messages' if possible (found 1 times)
  • suppressWarnings() in R/zzz.R (line 694, column 4)
* Checking function lengths...
ℹ NOTE: The recommended function length is 50 lines or less. There are 28
functions greater than 50 lines.
  The longest 5 functions are:
    • EBMTP() (R/EBMTP.R): 461 lines
    • ...
    • mt.legend() (R/mt.basic.R): 210 lines
* Checking man page documentation...
! WARNING: Empty or missing \value sections found in man page(s).
  Found in files:
    • man/EBMTP-class.Rd
    • man/mt.plot.Rd
    • man/MTP-methods.Rd
ℹ NOTE: Consider adding runnable examples to man pages that document exported
objects.
  • mt.internal.Rd
  • MTP-methods.Rd
  • ss.maxT.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; 1032 lines (15%) are > 80 characters long.
  First few lines:
    • R/EBMTP.R#L3 EBMTP<-function(X,W=NULL,Y=NULL,Z=NULL,Z ...
    • ...
    • man/wapply.Rd#L34 This function is used in the package \co ...
ℹ NOTE: Consider 4 spaces instead of tabs; 533 lines (8%) contain tabs.
  First few lines:
    • R/EBMTP.R#L12 warning(paste("Outcome Y=",Y,"should no ...
    • ...
    • man/MTP.Rd#L195 nulldist="boot.qt",keep.rawdist=TRUE) ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 2150 lines (32%) are
not.
  First few lines:
    • R/EBMTP.R#L4 ##sanity checks / formatting ...
    • ...
    • man/wapply.Rd#L22 \item{\dots}{optional arguments to \co ...
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 v1.48.0 results ───────────────────────────────────────────────────
✖ 3 ERRORS | ⚠ 4 WARNINGS | ℹ 20 NOTES
ℹ See the multtest.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.