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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('TargetScore_1.51.0.tar.gz','quit-with-status'=TRUE)"
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── Installing TargetScore ──────────────────────────────────────────────────────
✔ Package installed successfully
── TargetScore session metadata ────────────────────────────────────────────────
→ sourceDir: /tmp/RtmptjnbIK/file14a55f17458b74/TargetScore
→ BiocVersion: 3.24
→ Package: TargetScore
→ PackageVersion: 1.51.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/TargetScore.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmptjnbIK/file14a55f17458b74/TargetScore
→ installDir: /tmp/RtmptjnbIK/file14a55f76b7ea0a
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on TargetScore ────────────────────────────────────────────
* 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...
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/bsxfun.se.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/dot.ext.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/initialization.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/logmvgamma.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/logsumexp.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/sort_components.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/targetScore.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/vbgmm.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/man/vmax.Rd'
Warning in FUN(X[[i]], ...) :
  incomplete final line found on '/tmp/RtmptjnbIK/file14a55f17458b74/TargetScore/vignettes/TargetScore.Rnw'
ℹ NOTE: Consider adding these automatically suggested biocViews: Bayesian
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': 2013-Oct-17
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:
    • TargetScore.Rnw
! WARNING: Evaluate more vignette chunks.
ℹ 5 out of 9 code chunks = 55% unevaluated
ℹ 
ℹ NOTE: Vignette(s) found with missing chunk labels
  Found in files:
    • TargetScore.Rnw
* Checking package installation calls in R code...
* Checking for library/require of TargetScore...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • require() in R/vbgmm.R (line 14, column 1)
    • require() in R/vbgmm.R (line 15, column 1)
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/getTargetScores.R (line 47, column 34)
    • R/vbgmm.R (line 173, column 29)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • getTargetScores.R (line 47, column 41)
    • ...
    • vbgmm.R (line 440, column 76)
ℹ NOTE: Avoid using '=' for assignment and use '<-' instead
  Found in files:
    • R/vbgmm.R (line 399, column 13)
    • ...
    • R/vbgmm.R (line 435, column 32)
! WARNING: Avoid T/F variables; If logical, use TRUE/FALSE
  Found 14 times:
    • F in R/getTargetScores.R (line 17, column 80)
    • ...
    • F in R/vbgmm.R (line 436, column 44)
* 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 4
functions greater than 50 lines.
  The longest 5 functions are:
    • getTargetScores() (R/getTargetScores.R): 133 lines
    • ...
    • initialization() (R/vbgmm.R): 64 lines
* Checking man page documentation...
ℹ NOTE: Auto-generated '%% ~' comments found in Rd man pages.
  • man/bsxfun.se.Rd
  • ...
  • man/vmax.Rd
* Checking package NEWS...
* 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; 113 lines (7%) are > 80 characters long.
  First few lines:
    • R/getTargetScores.R#L15 load(sprintf("%s/logFC.imputed.RData", ...
    • ...
    • vignettes/TargetScore.Rnw#L274 TargetScore is a flexbile package that t
    ...
ℹ NOTE: Consider 4 spaces instead of tabs; 517 lines (31%) contain tabs.
  First few lines:
    • R/getTargetScores.R#L3 message(sprintf("Processing miRNA %s", ...
    • ...
    • vignettes/TargetScore.Rnw#L238 theme(legend.title= element_blank()) ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 112 lines (7%) are
not.
  First few lines:
    • R/getTargetScores.R#L2 ...
    • ...
    • vignettes/TargetScore.Rnw#L226 roceval(myTargetScores$targetScore, my ...
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 | ⚠ 5 WARNINGS | ℹ 15 NOTES
ℹ See the TargetScore.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.