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CHECK report for BloodCancerMultiOmics2017 on malbec1

This page was generated on 2019-04-16 15:26:19 -0400 (Tue, 16 Apr 2019).

Package 29/360HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BloodCancerMultiOmics2017 1.2.0
Malgorzata Oles
Snapshot Date: 2019-04-16 11:00:05 -0400 (Tue, 16 Apr 2019)
URL: https://git.bioconductor.org/packages/BloodCancerMultiOmics2017
Branch: RELEASE_3_8
Last Commit: 781296c
Last Changed Date: 2018-10-30 11:36:25 -0400 (Tue, 30 Oct 2018)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: BloodCancerMultiOmics2017
Version: 1.2.0
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BloodCancerMultiOmics2017.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BloodCancerMultiOmics2017_1.2.0.tar.gz
StartedAt: 2019-04-16 13:29:01 -0400 (Tue, 16 Apr 2019)
EndedAt: 2019-04-16 13:31:44 -0400 (Tue, 16 Apr 2019)
EllapsedTime: 163.0 seconds
RetCode: 0
Status:  OK 
CheckDir: BloodCancerMultiOmics2017.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BloodCancerMultiOmics2017.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BloodCancerMultiOmics2017_1.2.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.8-data-experiment/meat/BloodCancerMultiOmics2017.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BloodCancerMultiOmics2017/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BloodCancerMultiOmics2017’ version ‘1.2.0’
* 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 ‘BloodCancerMultiOmics2017’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 75.3Mb
  sub-directories of 1Mb or more:
    data     66.5Mb
    extdata   8.5Mb
* 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.8-data-experiment/meat/BloodCancerMultiOmics2017.Rcheck/00check.log’
for details.



Installation output

BloodCancerMultiOmics2017.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL BloodCancerMultiOmics2017
###
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘BloodCancerMultiOmics2017’ ...
** R
** data
*** moving datasets to lazyload DB
** 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
* DONE (BloodCancerMultiOmics2017)

Tests output


Example timings

BloodCancerMultiOmics2017.Rcheck/BloodCancerMultiOmics2017-Ex.timings

nameusersystemelapsed
addNrisk0.0560.0000.228
col2hex0.0000.0000.001
deckel0.0000.0000.001
exp10div000
giveDrugLabel0.0040.0000.004
log10div000
meltWholeDF0.0040.0000.003
moround000
nrisk0.020.000.02
percentAxisScale0.0000.0000.001
pheatmapwh1.0040.0081.063
safeMatch0.0000.0000.001
scientific_10000
smunlist000
stripConc0.0040.0000.001
survplot0.0760.0000.075
toCaps000
whichInGrob0.0800.0040.085