Package: maSigPro

Version: 1.54.0

Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings maSigPro_1.54.0.tar.gz

StartedAt: 2019-04-16 01:07:55 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 01:11:08 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 193.1 seconds

RetCode: 0

Status:  OK

CheckDir: maSigPro.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings maSigPro_1.54.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/maSigPro.Rcheck’
* using R version 3.5.3 (2019-03-11)
* 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 ‘1.54.0’
* 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
tableDS       18.008  0.012  18.167
seeDS         16.788  0.028  16.907
getDS         16.256  0.008  16.420
getDSPatterns 16.196  0.024  16.349
PodiumChange  16.112  0.008  16.242
IsoModel      14.988  0.028  15.150
ISOdesign     14.508  0.012  14.616
IsoPlot       14.404  0.008  14.507
ISOdata       13.732  0.040  13.792
T.fit          6.824  0.000   6.852
maSigPro       5.616  0.012   5.652
* 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-3.8-bioc/R/bin/R CMD INSTALL maSigPro
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘maSigPro’ ...
** 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
* DONE (maSigPro)

name	user	system	elapsed
ISOdata	13.732	0.040	13.792
ISOdesign	14.508	0.012	14.616
IsoModel	14.988	0.028	15.150
IsoPlot	14.404	0.008	14.507
NBdata	0.004	0.000	0.001
NBdesign	0.000	0.000	0.001
PlotGroups	0.032	0.000	0.033
PlotProfiles	0.016	0.000	0.018
PodiumChange	16.112	0.008	16.242
T.fit	6.824	0.000	6.852
average.rows	0.000	0.000	0.003
data.abiotic	0.004	0.000	0.005
edesign.abiotic	0.004	0.000	0.003
edesignCT	0.000	0.000	0.001
edesignDR	0.004	0.000	0.001
get.siggenes	3.480	0.000	3.498
getDS	16.256	0.008	16.420
getDSPatterns	16.196	0.024	16.349
i.rank	0	0	0
maSigPro	5.616	0.012	5.652
maSigProUsersGuide	0.004	0.008	0.013
make.design.matrix	0.004	0.004	0.012
p.vector	2.432	0.028	2.531
position	0.000	0.000	0.001
reg.coeffs	0.000	0.000	0.001
see.genes	1.304	0.012	1.450
seeDS	16.788	0.028	16.907
stepback	0.024	0.000	0.022
stepfor	0.104	0.000	0.107
suma2Venn	0.088	0.000	0.200
tableDS	18.008	0.012	18.167
two.ways.stepback	0.088	0.000	0.088
two.ways.stepfor	0.116	0.000	0.115