Package: rgsepd

Version: 1.14.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rgsepd_1.14.1.tar.gz

StartedAt: 2019-04-16 02:21:37 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 02:31:02 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 565.1 seconds

RetCode: 0

Status:  OK

CheckDir: rgsepd.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rgsepd_1.14.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/rgsepd.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-apple-darwin15.6.0 (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 ‘1.14.1’
* 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 ‘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 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
GSEPD_DEGHeatmap 136.454  5.188 146.909
* 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

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL rgsepd
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘rgsepd’ ...
** R
** data
** byte-compile and prepare 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)

name	user	system	elapsed
DisplayName	0.005	0.001	0.005
GSEPD_ChangeConditions	0.519	0.023	0.547
GSEPD_ChangeOutput	0.562	0.027	0.594
GSEPD_DEGHeatmap	136.454	5.188	146.909
GSEPD_Export_DESeq	0.572	0.017	0.590
GSEPD_Heatmap	2.565	0.033	2.605
GSEPD_INIT	0.479	0.017	0.498
GSEPD_PCA_Plot	2.333	0.035	2.383
GSEPD_PCA_Spec	2.365	0.029	2.402
GSEPD_Process	0.379	0.015	0.397
GSEPD_ProcessAll	0.350	0.014	0.364
GSEPD_PullDEG	2.376	0.043	2.432
IlluminaBodymap	0.390	0.015	0.413
IlluminaBodymapMeta	0.009	0.001	0.010
Name_to_RefSeq	0.001	0.000	0.001
rgsepd-package	0.406	0.017	0.424