===============================
R CMD BUILD
===============================
* checking for file ‘marinerData/DESCRIPTION’ ... OK
* preparing ‘marinerData’:
* checking DESCRIPTION meta-information ... OK
* checking for LF line-endings in source and make files and shell scripts
* checking for empty or unneeded directories
* building ‘marinerData_0.99.0.tar.gz’
===============================
BiocCheckGitClone('marinerData')
===============================
─ BiocCheckVersion: 1.35.17
─ BiocVersion: 3.17
─ Package: marinerData
─ PackageVersion: 0.99.0
─ sourceDir: /home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData
─ platform: unix
─ isTarBall: FALSE
* Checking valid files...
* ERROR: System files found that should not be Git tracked.
marinerData.Rproj
* 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...
─ BiocCheck results ──
1 ERRORS | 0 WARNINGS | 0 NOTES
For more details, run
browseVignettes(package = 'BiocCheck')
===============================
R CMD CHECK
===============================
* using log directory ‘/home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData.Rcheck’
* using R Under development (unstable) (2023-03-16 r83996)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘marinerData/DESCRIPTION’ ... OK
* this is package ‘marinerData’ version ‘0.99.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking serialization versions ... OK
* checking whether package ‘marinerData’ can be installed ... ERROR
Installation failed.
See ‘/home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData.Rcheck/00install.out’ for details.
* DONE
Status: 1 ERROR
See
‘/home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData.Rcheck/00check.log’
for details.
===============================
BiocCheck('marinerData_0.99.0.tar.gz')
===============================
cmd: /home/biocbuild/bbs-3.17-bioc/R/bin/R
args: --vanilla -e 'library(marinerData)'
stderr:
snapshotDate(): 2023-03-29
Error: package or namespace load failed for ‘marinerData’:
.onLoad failed in loadNamespace() for 'marinerData', details:
call: FUN(X[[i]], ...)
error: ‘LEUK_HEK_PJA27_inter_30.hic’ not found in ExperimentHub
Execution halted
* ERROR:
/home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData_0.99.0.tar.gz
must be loadable.
─ BiocCheckVersion: 1.35.17
─ BiocVersion: 3.17
─ Package: marinerData
─ PackageVersion: 0.99.0
─ sourceDir: /tmp/RtmpeELPXY/file6e78fca5f92d/marinerData
─ installDir: /tmp/RtmpeELPXY/file6e78f705cf640
─ BiocCheckDir: /home/pkgbuild/packagebuilder/workers/jobs/3002/marinerData_20230403134744/marinerData.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...
* 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...
* Checking build system compatibility...
* Checking for blank lines in DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for proper Description: field...
* NOTE: The Description field in the DESCRIPTION is made up by less
than 3 sentences. Please consider expanding this field, and
structure it as a full paragraph
* 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 pinned package versions...
* Checking DESCRIPTION/NAMESPACE consistency...
snapshotDate(): 2023-03-29
* WARNING: Import ExperimentHub in NAMESPACE as well as
DESCRIPTION.
* Checking .Rbuildignore...
* Checking for stray BiocCheck output folders...
* Checking vignette directory...
* ERROR: 'VignetteEngine' specified but not in the DESCRIPTION.
* ERROR: No 'VignetteEngine' specified in vignette or DESCRIPTION.
* WARNING: Package listed as VignetteEngine or VignetteBuilder but
not currently Suggested.
* NOTE: 'sessionInfo' not found in vignette(s)
* Checking whether vignette is built with 'R CMD build'...
* ERROR: Vignette must be built by 'R CMD build'. Please see the
`Vignette Checks` section of the BiocCheck vignette.
* Checking package installation calls in R code...
* Checking for library/require of marinerData...
* Checking coding practice...
* Checking parsed R code in R directory, examples, vignettes...
* Checking function lengths...
* Checking man page documentation...
Error: .onLoad failed in loadNamespace() for 'marinerData', details:
call: FUN(X[[i]], ...)
error: ‘LEUK_HEK_PJA27_inter_30.hic’ not found in ExperimentHub
Execution halted