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BioC 3.5: CHECK report for DRIMSeq on malbec2

This page was generated on 2017-10-18 14:17:34 -0400 (Wed, 18 Oct 2017).

Package 366/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DRIMSeq 1.4.1
Malgorzata Nowicka
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/DRIMSeq
Branch: RELEASE_3_5
Last Commit: 8772206
Last Changed Date: 2017-05-24 11:12:46 -0400 (Wed, 24 May 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: DRIMSeq
Version: 1.4.1
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings DRIMSeq_1.4.1.tar.gz
StartedAt: 2017-10-17 22:47:40 -0400 (Tue, 17 Oct 2017)
EndedAt: 2017-10-17 22:51:39 -0400 (Tue, 17 Oct 2017)
EllapsedTime: 239.4 seconds
RetCode: 0
Status:  OK 
CheckDir: DRIMSeq.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings DRIMSeq_1.4.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/DRIMSeq.Rcheck’
* using R version 3.4.2 (2017-09-28)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DRIMSeq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DRIMSeq’ version ‘1.4.1’
* 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 ‘DRIMSeq’ 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 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 ... 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
dmSQTLtest-class 132.216  0.724 133.061
dmDStest-class    10.676  0.060  11.268
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 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: OK

DRIMSeq.Rcheck/00install.out:

* installing *source* package ‘DRIMSeq’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DRIMSeq)

DRIMSeq.Rcheck/DRIMSeq-Ex.timings:

nameusersystemelapsed
dmDSdata-class0.0000.0080.022
dmDSdata0.0120.0000.011
dmDSfit-class0.0080.0000.008
dmDSprecision-class0.0080.0000.010
dmDStest-class10.676 0.06011.268
dmFilter0.0320.0000.049
dmFit0.0120.0000.012
dmPrecision0.0160.0000.014
dmSQTLdata-class0.0080.0040.014
dmSQTLdata0.0120.0000.013
dmSQTLfit-class0.0160.0000.015
dmSQTLprecision-class0.0160.0000.016
dmSQTLtest-class132.216 0.724133.061
dmTest0.0080.0000.007
plotData0.0160.0000.013
plotPValues0.0000.0040.006
plotPrecision0.0040.0000.007
plotProportions0.0040.0000.006