Package: maSigPro

Version: 1.56.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings maSigPro_1.56.0.tar.gz

StartedAt: 2019-10-16 02:53:06 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 02:56:23 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 197.3 seconds

RetCode: 0

Status:  OK

CheckDir: maSigPro.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings maSigPro_1.56.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/maSigPro.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 ‘maSigPro/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘maSigPro’ version ‘1.56.0’
* 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 ‘maSigPro’ 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                user system elapsed
getDSPatterns 16.429  0.004  16.620
IsoModel      15.897  0.009  16.347
seeDS         14.633  0.012  14.738
PodiumChange  14.475  0.008  14.483
tableDS       14.235  0.024  14.338
getDS         14.149  0.016  14.222
IsoPlot       13.736  0.008  13.757
ISOdata       13.631  0.056  13.689
ISOdesign     13.548  0.004  13.551
T.fit          8.377  0.000   8.377
maSigPro       5.198  0.004   5.202
* 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

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL maSigPro
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘maSigPro’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘maSigPro.Rnw’ 
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (maSigPro)

name	user	system	elapsed
ISOdata	13.631	0.056	13.689
ISOdesign	13.548	0.004	13.551
IsoModel	15.897	0.009	16.347
IsoPlot	13.736	0.008	13.757
NBdata	0.001	0.000	0.001
NBdesign	0.001	0.000	0.000
PlotGroups	0.033	0.000	0.034
PlotProfiles	0.018	0.000	0.020
PodiumChange	14.475	0.008	14.483
T.fit	8.377	0.000	8.377
average.rows	0.004	0.000	0.003
data.abiotic	0.005	0.000	0.005
edesign.abiotic	0.002	0.000	0.003
edesignCT	0.001	0.000	0.001
edesignDR	0.001	0.000	0.001
get.siggenes	4.004	0.000	4.006
getDS	14.149	0.016	14.222
getDSPatterns	16.429	0.004	16.620
i.rank	0	0	0
maSigPro	5.198	0.004	5.202
maSigProUsersGuide	0.003	0.012	0.016
make.design.matrix	0.006	0.006	0.012
p.vector	2.301	0.036	2.337
position	0.000	0.000	0.001
reg.coeffs	0.001	0.000	0.000
see.genes	1.346	0.028	1.692
seeDS	14.633	0.012	14.738
stepback	0.04	0.00	0.04
stepfor	0.146	0.000	0.147
suma2Venn	0.097	0.004	0.110
tableDS	14.235	0.024	14.338
two.ways.stepback	0.114	0.004	0.117
two.ways.stepfor	0.112	0.000	0.112