Package: maSigPro

Version: 1.52.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings maSigPro_1.52.0.tar.gz

StartedAt: 2018-10-16 22:22:22 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 22:25:53 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 211.0 seconds

RetCode: 0

Status:  OK

CheckDir: maSigPro.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:maSigPro.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings maSigPro_1.52.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/maSigPro.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (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 ‘1.52.0’
* 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 sizes of PDF files under ‘inst/doc’ ... 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       17.267  0.223  17.720
getDSPatterns 17.103  0.248  17.654
getDS         16.576  0.265  17.016
PodiumChange  16.254  0.249  16.587
IsoModel      16.161  0.254  16.648
seeDS         15.897  0.251  16.311
IsoPlot       15.668  0.209  15.930
ISOdesign     14.755  0.273  15.125
ISOdata       14.228  0.363  14.648
T.fit          7.844  0.032   7.922
maSigPro       5.674  0.035   5.807
* 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 maSigPro
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/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	14.228	0.363	14.648
ISOdesign	14.755	0.273	15.125
IsoModel	16.161	0.254	16.648
IsoPlot	15.668	0.209	15.930
NBdata	0.002	0.001	0.003
NBdesign	0.002	0.001	0.003
PlotGroups	0.032	0.002	0.042
PlotProfiles	0.013	0.003	0.022
PodiumChange	16.254	0.249	16.587
T.fit	7.844	0.032	7.922
average.rows	0.004	0.000	0.004
data.abiotic	0.004	0.001	0.005
edesign.abiotic	0.004	0.001	0.005
edesignCT	0.002	0.000	0.002
edesignDR	0.009	0.001	0.010
get.siggenes	3.619	0.017	3.647
getDS	16.576	0.265	17.016
getDSPatterns	17.103	0.248	17.654
i.rank	0.001	0.000	0.001
maSigPro	5.674	0.035	5.807
maSigProUsersGuide	0.005	0.002	0.008
make.design.matrix	0.011	0.006	0.018
p.vector	2.451	0.018	2.497
position	0.002	0.000	0.002
reg.coeffs	0.002	0.000	0.002
see.genes	0.972	0.136	1.290
seeDS	15.897	0.251	16.311
stepback	0.042	0.001	0.042
stepfor	0.160	0.003	0.163
suma2Venn	0.097	0.003	0.111
tableDS	17.267	0.223	17.720
two.ways.stepback	0.103	0.000	0.106
two.ways.stepfor	0.157	0.001	0.160