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CHECK report for SCATEData on malbec1

This page was generated on 2021-05-06 14:10:14 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the SCATEData package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 332/398HostnameOS / ArchINSTALLBUILDCHECK
SCATEData 1.0.0  (landing page)
Wenpin Hou
Snapshot Date: 2021-05-06 09:00:13 -0400 (Thu, 06 May 2021)
URL: https://git.bioconductor.org/packages/SCATEData
Branch: RELEASE_3_12
Last Commit: 4c42627
Last Changed Date: 2020-10-27 10:32:09 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: SCATEData
Version: 1.0.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:SCATEData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings SCATEData_1.0.0.tar.gz
StartedAt: 2021-05-06 12:43:39 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 12:47:45 -0400 (Thu, 06 May 2021)
EllapsedTime: 246.6 seconds
RetCode: 0
Status:   OK  
CheckDir: SCATEData.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:SCATEData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings SCATEData_1.0.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-data-experiment/meat/SCATEData.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SCATEData/DESCRIPTION’ ... OK
* this is package ‘SCATEData’ version ‘1.0.0’
* 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 190.0Mb
  sub-directories of 1Mb or more:
    extdata  189.8Mb
* 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 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 9.684  0.212  10.594
mm10.rds 6.172  0.188   6.758
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.12-data-experiment/meat/SCATEData.Rcheck/00check.log’
for details.



Installation output

SCATEData.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL SCATEData
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/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(): 2020-10-27
** testing if installed package can be loaded from final location
snapshotDate(): 2020-10-27
** testing if installed package keeps a record of temporary installation path
* DONE (SCATEData)

Tests output


Example timings

SCATEData.Rcheck/SCATEData-Ex.timings

nameusersystemelapsed
GSM1596831.bam0.0680.0000.188
GSM1596840.bam0.0960.0040.228
GSM1596874.bam0.0720.0000.071
GSM1596881.bam0.0680.0000.076
GSM1596940.bam0.0320.0000.034
GSM1596942.bam0.0720.0000.071
GSM1596944.bam0.1040.0000.212
GSM1596961.bam0.1200.0120.168
GSM1597041.bam0.0920.0040.098
GSM1597096.bam0.0720.0000.149
SRR1779746.bam0.1200.0000.213
SRR1779805.bam0.1320.0040.286
SRR1779856.bam0.0240.0000.038
SRR1779874.bam0.1440.0000.185
SRR1779956.bam0.0880.0040.094
SRR1779959.bam0.0920.0000.092
SRR1779973.bam0.0560.0000.074
SRR1780018.bam0.0280.0000.036
SRR1780020.bam0.1040.0040.109
SRR1780054.bam0.1160.0040.124
hg19.rds 9.684 0.21210.594
mm10.rds6.1720.1886.758