===============================
R CMD BUILD
===============================
* checking for file DegCre/DESCRIPTION ... OK
* preparing DegCre:
* checking DESCRIPTION meta-information ... OK
* installing the package 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
* looking to see if a data/datalist file should be added
* building DegCre_0.99.13.tar.gz
===============================
BiocCheckGitClone('DegCre')
===============================
BiocCheckVersion: 1.39.26
BiocVersion: 3.19
Package: DegCre
PackageVersion: 0.99.13
sourceDir: /home/pkgbuild/packagebuilder/workers/jobs/3265/b6ee604d164623d29e979eba2e84758638a9ee26/DegCre
platform: unix
isTarBall: FALSE
* Checking valid files...
* Checking for stray BiocCheck output folders...
* Checking for inst/doc folders...
* Checking DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for valid maintainer...
* Checking CITATION...
* Checking that provided CITATION file is correctly formatted...
BiocCheck results
0 ERRORS | 0 WARNINGS | 0 NOTES
For more details, run
browseVignettes(package = 'BiocCheck')
===============================
R CMD CHECK
===============================
* using log directory /home/pkgbuild/packagebuilder/workers/jobs/3265/b6ee604d164623d29e979eba2e84758638a9ee26/DegCre.Rcheck
* using R Under development (unstable) (2024-03-06 r86056)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* using option --no-vignettes
* checking for file DegCre/DESCRIPTION ... OK
* checking extension type ... Package
* this is package DegCre version 0.99.13
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Namespace dependencies missing from DESCRIPTION Imports/Depends entries:
'BiocGenerics', 'GenomeInfoDb', 'IRanges'
See section The DESCRIPTION file in the Writing R Extensions
manual.
* DONE
Status: 1 ERROR
See
/home/pkgbuild/packagebuilder/workers/jobs/3265/b6ee604d164623d29e979eba2e84758638a9ee26/DegCre.Rcheck/00check.log
for details.
===============================
BiocCheck('DegCre_0.99.13.tar.gz')
===============================
BiocCheckVersion: 1.39.26
BiocVersion: 3.19
Package: DegCre
PackageVersion: 0.99.13
sourceDir: /tmp/RtmpQfsmIs/file33606d219d97fd/DegCre
installDir: /tmp/RtmpQfsmIs/file33606d6c3511a7
BiocCheckDir: /home/pkgbuild/packagebuilder/workers/jobs/3265/b6ee604d164623d29e979eba2e84758638a9ee26/DegCre.BiocCheck
platform: unix
isTarBall: TRUE
* Installing package...
* 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...
* NOTE: Update R version dependency from 4.3.3 to 4.4.0.
* 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 blank lines in DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for proper Description: field...
* Checking for whitespace in DESCRIPTION field names...
* Checking that Package field matches directory/tarball name...
* Checking for Version: field...
* Checking for valid maintainer...
* Checking License: for restrictive use...
* Checking for recommended DESCRIPTION fields...
* Checking for Bioconductor software dependencies...
Bioconductor dependencies found in Imports & Depends (57%).
* Checking for pinned package versions in DESCRIPTION...
* Checking DESCRIPTION/NAMESPACE consistency...
* WARNING: Import BiocGenerics, GenomeInfoDb, IRanges in
DESCRIPTION as well as 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 DegCre...
* Checking coding practice...
* Checking parsed R code in R directory, examples, vignettes...
* Checking function lengths...
* NOTE: The recommended function length is 50 lines or less. There
are 12 functions greater than 50 lines.
* Checking man page documentation...
* Checking package NEWS...
* Checking unit tests...
* Checking skip_on_bioc() in tests...
* Checking formatting of DESCRIPTION, NAMESPACE, man pages, R source,
and vignette source...
* NOTE: Consider shorter lines; 26 lines (1%) are > 80 characters
long.
* NOTE: Consider multiples of 4 spaces for line indents; 591 lines
(15%) are not.
See https://contributions.bioconductor.org/r-code.html
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...
Maintainer is subscribed to bioc-devel.
* Checking for support site registration...
Maintainer is registered at support site.
Package is in the Support Site Watched Tags.
BiocCheck results
0 ERRORS | 1 WARNINGS | 4 NOTES
See the DegCre.BiocCheck folder and run
browseVignettes(package = 'BiocCheck')
for details.