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### Running command:
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###   /home/biocbuild/bbs-3.24-bioc/R/bin/Rscript -e "BiocCheck::BiocCheck('flowcatchR_1.47.0.tar.gz','quit-with-status'=TRUE)"
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── Installing flowcatchR ───────────────────────────────────────────────────────
✔ Package installed successfully
── flowcatchR session metadata ─────────────────────────────────────────────────
→ sourceDir: /tmp/RtmpfS38hN/file9aae91102c3ae/flowcatchR
→ BiocVersion: 3.24
→ Package: flowcatchR
→ PackageVersion: 1.47.0
→ BiocCheckDir: /home/biocbuild/bbs-3.24-bioc/meat/flowcatchR.BiocCheck
→ BiocCheckVersion: 1.49.4
→ sourceDir: /tmp/RtmpfS38hN/file9aae91102c3ae/flowcatchR
→ installDir: /tmp/RtmpfS38hN/file9aae940f7c886
→ isTarBall: TRUE
→ platform: unix
── Running BiocCheck on flowcatchR ─────────────────────────────────────────────
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
ℹ NOTE: 'LazyData:' in the 'DESCRIPTION' should be set to false or removed
* 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...
* 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...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* Checking for Bioconductor software dependencies...
ℹ Bioconductor dependencies found in Imports & Depends (20%).
* 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...
* Checking package installation calls in R code...
* Checking for library/require of flowcatchR...
! WARNING: Avoid the use of 'library' or 'require' in R code
  Found in files:
    • library() in R/preprocessing.R (line 116, column 27)
* Checking coding practice...
ℹ NOTE: Avoid sapply(); use vapply()
  Found in files:
    • R/auxiliary.R (line 124, column 8)
    • R/auxiliary.R (line 339, column 8)
    • R/trajectories.R (line 237, column 33)
ℹ NOTE: Avoid 1:...; use seq_len() or seq_along()
  Found in files:
    • auxiliary.R (line 69, column 36)
    • ...
    • trajectories.R (line 234, column 16)
ℹ NOTE: Avoid 'cat' and 'print' outside of 'show' methods
  Found in files:
    • cat() in R/auxiliary.R (line 76, column 16)
    • ...
    • cat() in R/trajectories.R (line 241, column 15)
ℹ NOTE: Avoid the use of 'paste' in condition signals
  Found in files:
    • R/kinematics.R (line 128, column 13)
ℹ NOTE: Avoid system() ; use system2()
  Found in files:
    • system() in R/auxiliary.R (line 189, column 5)
* 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 8
functions greater than 50 lines.
  The longest 5 functions are:
    • link.particles() (R/tracking.R): 192 lines
    • ...
    • add.contours() (R/postprocessing.R): 66 lines
* Checking man page documentation...
! WARNING: Empty or missing \format sections found in data man page(s).
  Found in files:
    • man/candidate.platelets.Rd
    • man/MesenteriumSubset.Rd
ℹ NOTE: Consider adding runnable examples to man pages that document exported
objects.
  • read.Frames.Rd
  • ...
  • snap.Rd
ℹ NOTE: Usage of dontrun / donttest tags found in man page examples. 17% of man
pages use at least one of these tags.
  Found in files:
    • add.contours.Rd
    • ...
    • snap.Rd
ℹ NOTE: Use donttest instead of dontrun.
  Found in files:
    • add.contours.Rd
    • ...
    • snap.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; 405 lines (13%) are > 80 characters long.
  First few lines:
    • R/AllClasses.R#L6 #' S4 class for storing information on m ...
    • ...
    • vignettes/flowcatchr_vignette.Rmd#L538 We would like to thank the members
    of th ...
ℹ NOTE: Consider multiples of 4 spaces for line indents; 815 lines (27%) are
not.
  First few lines:
    • R/AllClasses.R#L13 contains = "Image", ...
    • ...
    • vignettes/flowcatchr_vignette.Rmd#L475 frameID = 1,showVelocity = T) ...
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 ───────────────────────────────────────────────────
✖ 0 ERRORS | ⚠ 2 WARNINGS | ℹ 16 NOTES
ℹ See the flowcatchR.BiocCheck folder and run
  browseVignettes(package = 'BiocCheck')
  for details.