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This page was generated on 2023-04-11 14:50:27 -0400 (Tue, 11 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
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

CHECK results for SCATEData on nebbiolo2


To the developers/maintainers of the SCATEData package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 342/416HostnameOS / ArchINSTALLBUILDCHECK
SCATEData 1.8.0  (landing page)
Wenpin Hou
Snapshot Date: 2023-04-11 07:30:01 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/SCATEData
git_branch: RELEASE_3_16
git_last_commit: 97d090d
git_last_commit_date: 2022-11-01 11:23:51 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: SCATEData
Version: 1.8.0
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:SCATEData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings SCATEData_1.8.0.tar.gz
StartedAt: 2023-04-11 12:17:18 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 12:20:49 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 210.5 seconds
RetCode: 0
Status:   OK  
CheckDir: SCATEData.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:SCATEData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings SCATEData_1.8.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-data-experiment/meat/SCATEData.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘SCATEData/DESCRIPTION’ ... OK
* this is package ‘SCATEData’ version ‘1.8.0’
* 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 whether package ‘SCATEData’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 336.2Mb
  sub-directories of 1Mb or more:
    extdata  336.0Mb
* 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 R 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 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 ... NOTE
prepare_Rd: hg19.rds.Rd:18-19: Dropping empty section \usage
prepare_Rd: mm10.rds.Rd:18-19: Dropping empty section \usage
* 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
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
hg19.rds 4.861  0.427   5.289
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘SCATEData_package.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.16-data-experiment/meat/SCATEData.Rcheck/00check.log’
for details.



Installation output

SCATEData.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL SCATEData
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’
* installing *source* package ‘SCATEData’ ...
** 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
snapshotDate(): 2022-10-31
** testing if installed package can be loaded from final location
snapshotDate(): 2022-10-31
** testing if installed package keeps a record of temporary installation path
* DONE (SCATEData)

Tests output


Example timings

SCATEData.Rcheck/SCATEData-Ex.timings

nameusersystemelapsed
GSM1596831.bam0.0410.0160.057
GSM1596840.bam0.0620.0030.066
GSM1596874.bam0.040.000.04
GSM1596881.bam0.0410.0010.041
GSM1596940.bam0.0120.0030.016
GSM1596942.bam0.0380.0000.038
GSM1596944.bam0.0750.0120.087
GSM1596961.bam0.0700.0080.078
GSM1597041.bam0.0650.0000.066
GSM1597096.bam0.0430.0080.052
SRR1779746.bam0.0670.0040.072
SRR1779805.bam0.0870.0040.091
SRR1779856.bam0.0140.0040.018
SRR1779874.bam0.1080.0040.113
SRR1779956.bam0.0640.0040.068
SRR1779959.bam0.0650.0000.066
SRR1779973.bam0.0410.0000.042
SRR1780018.bam0.020.000.02
SRR1780020.bam0.0370.0000.037
SRR1780054.bam0.0830.0040.087
hg19.rds4.8610.4275.289
mm10.rds2.2620.2402.505