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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('iterativeBMAsurv_1.71.0.tar.gz','quit-with-status'=TRUE)"
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── Installing iterativeBMAsurv ─────────────────────────────────────────────────
✔ Package installed successfully
── iterativeBMAsurv session metadata ───────────────────────────────────────────
→ sourceDir: /tmp/RtmpHaE2QB/filec6c07d345d1b/iterativeBMAsurv
→ BiocVersion: 3.24
→ Package: iterativeBMAsurv
→ PackageVersion: 1.71.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/iterativeBMAsurv.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmpHaE2QB/filec6c07d345d1b/iterativeBMAsurv
→ installDir: /tmp/RtmpHaE2QB/filec6c0729db43bd
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on iterativeBMAsurv ───────────────────────────────────────
* 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, KEGG, Bayesian, Classification, Regression, Survival
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: 'Date:' field format is not 'YYYY-MM-DD': 2008-5-19
ℹ NOTE: Provide 'BugReports' field(s) in DESCRIPTION
* Checking for Bioconductor software dependencies...
! WARNING: No Bioconductor dependencies detected. Note that some infrastructure
packages may not have Bioconductor dependencies. For more information, reach
out to the Bioconductor community and/or consider a CRAN submission.
* 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:
    • iterativeBMAsurv.Rnw
ℹ NOTE: 'sessionInfo' not found in vignette(s)
  Missing from file(s):
    • vignettes/iterativeBMAsurv.Rnw
* Checking package installation calls in R code...
* Checking for library/require of iterativeBMAsurv...
* Checking coding practice...
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • CVSurvivalCode.R (line 22, column 19)
    • ...
    • singleGeneCoxph.R (line 52, column 44)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/CVSurvivalCode.R (line 39, column 9)
    • ...
    • print() in R/iterateBMAsurv.R (line 230, column 17)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/CVSurvivalCode.R (line 104, column 21)
    • R/CVSurvivalCode.R (line 105, column 22)
    • R/iterateBMAsurv.R (line 211, column 21)
* 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:
    • crossVal.fold() (R/CVSurvivalCode.R): 99 lines
    • ...
    • crossVal() (R/CVSurvivalCode.R): 51 lines
* Checking man page documentation...
ℹ NOTE: Consider adding runnable examples to man pages that document exported
objects.
  • iterativeBMAsurv-internal.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; 423 lines (17%) are > 80 characters long.
  First few lines:
    • R/CVSurvivalCode.R#L3 # Arguments: exset = matrix of independe ...
    • ...
    • vignettes/iterativeBMAsurv.Rnw#L345 NSF llS0534094, NSF ATM0724721, and
    Offi ...
ℹ NOTE: Consider 4 spaces instead of tabs; 657 lines (26%) contain tabs.
  First few lines:
    • R/CVSurvivalCode.R#L7 # nbest = number specifying the num ...
    • ...
    • vignettes/iterativeBMAsurv.Rnw#L194 coefficient for each model. ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 270 lines (11%) are
not.
  First few lines:
    • R/CVSurvivalCode.R#L15 ...
    • ...
    • vignettes/iterativeBMAsurv.Rnw#L324 imageplot.iterate.bma.surv
    (ret.bic.sur ...
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...
✖ ERROR: Unable to find your email in the Support Site: HTTP 404 Not Found.
── BiocCheck v1.49.4 results ───────────────────────────────────────────────────
✖ 2 ERRORS | ⚠ 2 WARNINGS | ℹ 16 NOTES
ℹ See the iterativeBMAsurv.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.