===============================
R CMD BUILD
===============================
* checking for file DMRsegaldata/DESCRIPTION ... OK
* preparing DMRsegaldata:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... OK
* checking for LF line-endings in source and make files and shell scripts
* checking for empty or unneeded directories
Omitted LazyData and LazyDataCompression from DESCRIPTION
* building DMRsegaldata_0.99.0.tar.gz
===============================
BiocCheckGitClone('DMRsegaldata')
===============================
sourceDir: /home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata
BiocVersion: 3.23
Package: DMRsegaldata
PackageVersion: 0.99.0
BiocCheckDir: /home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata.BiocCheck
BiocCheckVersion: 1.47.16
sourceDir: /home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata
installDir: NULL
isTarBall: FALSE
platform: unix
* Checking valid files...
Warning in readLines(gitignore) :
incomplete final line found on '/home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata/.gitignore'
* Checking individual file sizes...
* Checking for stray BiocCheck output folders...
* Checking for inst/doc folders...
* Checking if DESCRIPTION is well formatted...
* Checking NAMESPACE...
* Checking for valid maintainer...
* Checking CITATION...
i NOTE: (Optional) CITATION file not found. Only include a CITATION file if
there is a preprint or publication for this Bioconductor package. Note that
Bioconductor packages are not required to have a CITATION file but it is useful
both for users and for tracking Bioconductor project-wide metrics. When
including a CITATION file, add the publication using the 'doi' argument of
'bibentry()'.
BiocCheck v1.47.16 results
0 ERRORS | 0 WARNINGS | i 1 NOTES
i For more details, run
browseVignettes(package = 'BiocCheck')
===============================
R CMD CHECK
===============================
* using log directory /home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata.Rcheck
* using R Under development (unstable) (2026-01-15 r89304)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using option --no-vignettes
* checking for file DMRsegaldata/DESCRIPTION ... OK
* checking extension type ... Package
* this is package DMRsegaldata version 0.99.0
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Package suggested but not available: DMRsegal
The suggested packages are required for a complete check.
Checking can be attempted without them by setting the environment
variable _R_CHECK_FORCE_SUGGESTS_ to a false value.
See section The DESCRIPTION file in the Writing R Extensions
manual.
* DONE
Status: 1 ERROR
See
/home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata.Rcheck/00check.log
for details.
===============================
BiocCheck('DMRsegaldata_0.99.0.tar.gz')
===============================
Installing DMRsegaldata
Package installed successfully
DMRsegaldata session metadata
sourceDir: /tmp/RtmpH0namt/file2d2ef66a46ecfe/DMRsegaldata
BiocVersion: 3.23
Package: DMRsegaldata
PackageVersion: 0.99.0
BiocCheckDir: /home/pkgbuild/packagebuilder/workers/jobs/3997/DMRsegaldata_20260127133902/DMRsegaldata.BiocCheck
BiocCheckVersion: 1.47.16
sourceDir: /tmp/RtmpH0namt/file2d2ef66a46ecfe/DMRsegaldata
installDir: /tmp/RtmpH0namt/file2d2ef6522cf161
isTarBall: TRUE
platform: unix
Running BiocCheck on DMRsegaldata
* Checking for deprecated package usage...
* Checking for remote package usage...
* Checking for 'LazyData: true' usage...
* Checking version number...
* Checking for version number mismatch...
* Checking new package version number...
* Checking R version dependency...
i NOTE: Update R version dependency from 4.5.0 to 4.6.0
* Checking package size...
* Checking individual file sizes...
* Checking biocViews...
* Checking that biocViews are present...
* Checking package type based on biocViews...
ExperimentData
* 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: CancerData,
MethylationArrayData, PackageTypeData
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...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* 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...
* Checking NAMESPACE...
* Checking .Rbuildignore...
* Checking for stray BiocCheck output folders...
* Checking vignette directory...
* Checking whether vignette is built with 'R CMD build'...
* Checking package installation calls in R code...
* Checking for library/require of DMRsegaldata...
* Checking coding practice...
* Checking parsed R code in R directory, examples, vignettes...
* Checking function lengths...
* Checking man page documentation...
i NOTE: Usage of dontrun / donttest tags found in man page examples. 100% of
man pages use at least one of these tags.
Found in files:
array_type.Rd
...
pheno.Rd
i NOTE: Use donttest instead of dontrun.
Found in files:
array_type.Rd
...
pheno.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; 9 lines (4%) are > 80 characters long.
First few lines:
vignettes/DMRsegaldata.Rmd#L26 The `DMRsegaldata` package provides exam ...
...
vignettes/DMRsegaldata.Rmd#L237 pch = 19, col = ifelse(dmps_subset$p ...
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 if new package already exists in Bioconductor...
* Checking for bioc-devel mailing list subscription...
i Maintainer is subscribed to 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 v1.47.16 results
1 ERRORS | 1 WARNINGS | i 7 NOTES
i See the DMRsegaldata.BiocCheck folder and run
browseVignettes(package = 'BiocCheck')
for details.