Back to Build/check report for BioC 3.21 experimental data
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-11-21 15:01 -0500 (Thu, 21 Nov 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4742
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 149/429HostnameOS / ArchINSTALLBUILDCHECK
GenomicDistributionsData 1.15.0  (landing page)
Kristyna Kupkova
Snapshot Date: 2024-11-21 07:30 -0500 (Thu, 21 Nov 2024)
git_url: https://git.bioconductor.org/packages/GenomicDistributionsData
git_branch: devel
git_last_commit: b1554ea
git_last_commit_date: 2024-10-29 09:51:44 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for GenomicDistributionsData on nebbiolo1

To the developers/maintainers of the GenomicDistributionsData package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: GenomicDistributionsData
Version: 1.15.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:GenomicDistributionsData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings GenomicDistributionsData_1.15.0.tar.gz
StartedAt: 2024-11-21 12:38:35 -0500 (Thu, 21 Nov 2024)
EndedAt: 2024-11-21 12:46:34 -0500 (Thu, 21 Nov 2024)
EllapsedTime: 478.9 seconds
RetCode: 0
Status:   OK  
CheckDir: GenomicDistributionsData.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:GenomicDistributionsData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings GenomicDistributionsData_1.15.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/GenomicDistributionsData.Rcheck’
* using R Under development (unstable) (2024-10-21 r87258)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘GenomicDistributionsData/DESCRIPTION’ ... OK
* this is package ‘GenomicDistributionsData’ version ‘1.15.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .travis.yml
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘GenomicDistributionsData’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.21-data-experiment/meat/GenomicDistributionsData.Rcheck/00check.log’
for details.


Installation output

GenomicDistributionsData.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL GenomicDistributionsData
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘GenomicDistributionsData’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (GenomicDistributionsData)

Tests output


Example timings

GenomicDistributionsData.Rcheck/GenomicDistributionsData-Ex.timings

nameusersystemelapsed
GenomicDistributionsData000
TSS_hg191.7130.1172.129
TSS_hg381.6660.0621.820
TSS_mm100.9940.1291.221
TSS_mm91.0550.1211.249
buildChromSizes000
buildGeneModels000
buildOpenSignalMatrix000
buildTSS000
chromSizes_hg190.7740.0510.902
chromSizes_hg380.8250.0680.967
chromSizes_mm100.8260.0520.950
chromSizes_mm90.7750.0580.903
geneModels_hg191.0730.0671.213
geneModels_hg381.0490.0611.186
geneModels_mm101.0050.0541.131
geneModels_mm91.2700.0681.409
loadBSgenome000
loadEnsDb0.0000.0000.001
loadTxDb000
openSignalMatrix_hg190.0010.0000.000
openSignalMatrix_hg38000
openSignalMatrix_mm10000