Package: maSigPro

Version: 1.54.0

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_1.54.0.tar.gz

StartedAt: 2019-04-16 01:00:26 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 01:04:05 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 218.4 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_1.54.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/maSigPro.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 ‘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 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
getDS         19.060  0.250  19.726
getDSPatterns 18.594  0.232  19.314
seeDS         16.962  0.200  17.358
tableDS       16.790  0.214  17.192
PodiumChange  16.605  0.205  17.057
ISOdata       15.826  0.337  16.256
ISOdesign     15.907  0.222  16.271
IsoPlot       15.444  0.241  15.829
IsoModel      15.419  0.265  15.875
T.fit          9.213  0.038   9.446
* 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	15.826	0.337	16.256
ISOdesign	15.907	0.222	16.271
IsoModel	15.419	0.265	15.875
IsoPlot	15.444	0.241	15.829
NBdata	0.002	0.001	0.003
NBdesign	0.002	0.001	0.002
PlotGroups	0.040	0.003	0.049
PlotProfiles	0.010	0.003	0.017
PodiumChange	16.605	0.205	17.057
T.fit	9.213	0.038	9.446
average.rows	0.004	0.000	0.004
data.abiotic	0.005	0.002	0.007
edesign.abiotic	0.003	0.001	0.004
edesignCT	0.001	0.001	0.003
edesignDR	0.002	0.001	0.002
get.siggenes	3.954	0.017	4.021
getDS	19.060	0.250	19.726
getDSPatterns	18.594	0.232	19.314
i.rank	0	0	0
maSigPro	4.654	0.028	4.706
maSigProUsersGuide	0.005	0.002	0.008
make.design.matrix	0.010	0.006	0.016
p.vector	2.209	0.020	2.246
position	0.001	0.000	0.000
reg.coeffs	0.000	0.000	0.001
see.genes	1.033	0.135	1.366
seeDS	16.962	0.200	17.358
stepback	0.040	0.000	0.043
stepfor	0.144	0.001	0.147
suma2Venn	0.094	0.004	0.110
tableDS	16.790	0.214	17.192
two.ways.stepback	0.102	0.001	0.102
two.ways.stepfor	0.140	0.001	0.145