Package: rgsepd

Version: 1.16.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings rgsepd_1.16.0.tar.gz

StartedAt: 2019-10-16 04:31:14 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 04:39:55 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 520.9 seconds

RetCode: 0

Status:  OK

CheckDir: rgsepd.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings rgsepd_1.16.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/rgsepd.Rcheck’
* using R version 3.6.1 (2019-07-05)
* 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 ‘1.16.0’
* 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 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
Examples with CPU or elapsed time > 5s
                    user system elapsed
ExtractProjection 79.489  1.601  138.27
* 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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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL rgsepd
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘rgsepd’ ...
** using staged installation
** R
** data
** 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
'select()' returned 1:1 mapping between keys and columns
'select()' returned 1:1 mapping between keys and columns
** testing if installed package can be loaded from final location
'select()' returned 1:1 mapping between keys and columns
'select()' returned 1:1 mapping between keys and columns
** testing if installed package keeps a record of temporary installation path
* DONE (rgsepd)

name	user	system	elapsed
DisplayName	0.004	0.000	0.003
ExtractProjection	79.489	1.601	138.270
GSEPD_ChangeConditions	0.464	0.000	0.465
GSEPD_ChangeOutput	0.448	0.004	0.453
GSEPD_DEGHeatmap	4.736	0.004	4.740
GSEPD_Export_DESeq	0.359	0.004	0.363
GSEPD_Heatmap	2.038	0.000	2.038
GSEPD_INIT	0.249	0.000	0.249
GSEPD_PCA_Plot	2.077	0.000	2.077
GSEPD_PCA_Spec	2.151	0.004	2.155
GSEPD_Process	0.331	0.000	0.331
GSEPD_ProcessAll	0.468	0.004	0.472
GSEPD_PullDEG	2.036	0.000	2.036
IlluminaBodymap	0.251	0.004	0.255
IlluminaBodymapMeta	0.007	0.000	0.007
Name_to_RefSeq	0	0	0
rgsepd-package	0.250	0.004	0.254