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BioC 3.5: CHECK report for rgsepd on malbec2

This page was generated on 2017-10-18 14:16:29 -0400 (Wed, 18 Oct 2017).

Package 1109/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rgsepd 1.8.0
Karl Stamm
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/rgsepd
Branch: RELEASE_3_5
Last Commit: b145ae0
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 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: rgsepd
Version: 1.8.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings rgsepd_1.8.0.tar.gz
StartedAt: 2017-10-18 02:02:17 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 02:10:11 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 474.1 seconds
RetCode: 0
Status:  OK 
CheckDir: rgsepd.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings rgsepd_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/rgsepd.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 ‘rgsepd/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘rgsepd’ version ‘1.8.0’
* 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 ‘rgsepd’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
GSEPD_DEGHeatmap 109.3  1.792 116.542
* 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

rgsepd.Rcheck/00install.out:

* installing *source* package ‘rgsepd’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
'select()' returned 1:1 mapping between keys and columns
'select()' returned 1:1 mapping between keys and columns
* DONE (rgsepd)

rgsepd.Rcheck/rgsepd-Ex.timings:

nameusersystemelapsed
DisplayName0.0080.0000.005
GSEPD_ChangeConditions0.4120.0080.422
GSEPD_ChangeOutput0.4720.0000.475
GSEPD_DEGHeatmap109.300 1.792116.542
GSEPD_Export_DESeq0.4360.0000.437
GSEPD_Heatmap2.2880.0002.288
GSEPD_INIT0.3960.0000.395
GSEPD_PCA_Plot2.2120.0002.210
GSEPD_PCA_Spec2.2320.0082.243
GSEPD_Process0.40.00.4
GSEPD_ProcessAll0.4320.0000.434
GSEPD_PullDEG2.0920.0002.091
IlluminaBodymap0.4200.0000.422
IlluminaBodymapMeta0.0120.0000.013
Name_to_RefSeq000
rgsepd-package0.4440.0040.447