Package: maSigPro

Version: 1.55.0

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_1.55.0.tar.gz

StartedAt: 2019-04-09 01:42:41 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 01:45:57 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 196.4 seconds

RetCode: 0

Status:  OK

CheckDir: maSigPro.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:maSigPro.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings maSigPro_1.55.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/maSigPro.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* 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 ‘1.55.0’
* 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
ISOdata       16.850  0.040  17.011
PodiumChange  16.795  0.000  16.798
ISOdesign     15.937  0.000  16.011
seeDS         15.797  0.020  15.894
getDSPatterns 15.531  0.006  15.594
IsoModel      14.920  0.012  15.052
getDS         13.735  0.009  13.811
IsoPlot       13.449  0.000  13.455
tableDS       13.148  0.020  13.233
T.fit          5.387  0.000   5.387
* 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 maSigPro
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* 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	16.850	0.040	17.011
ISOdesign	15.937	0.000	16.011
IsoModel	14.920	0.012	15.052
IsoPlot	13.449	0.000	13.455
NBdata	0.001	0.000	0.002
NBdesign	0.001	0.000	0.001
PlotGroups	0.049	0.000	0.051
PlotProfiles	0.020	0.000	0.022
PodiumChange	16.795	0.000	16.798
T.fit	5.387	0.000	5.387
average.rows	0.002	0.000	0.002
data.abiotic	0.004	0.000	0.004
edesign.abiotic	0.001	0.000	0.001
edesignCT	0.001	0.000	0.001
edesignDR	0.001	0.000	0.001
get.siggenes	2.523	0.004	2.527
getDS	13.735	0.009	13.811
getDSPatterns	15.531	0.006	15.594
i.rank	0.001	0.000	0.000
maSigPro	3.854	0.004	3.862
maSigProUsersGuide	0.000	0.014	0.013
make.design.matrix	0.013	0.000	0.012
p.vector	2.349	0.024	2.374
position	0.000	0.000	0.001
reg.coeffs	0	0	0
see.genes	1.321	0.024	1.903
seeDS	15.797	0.020	15.894
stepback	0.036	0.000	0.035
stepfor	0.153	0.000	0.154
suma2Venn	0.074	0.004	0.098
tableDS	13.148	0.020	13.233
two.ways.stepback	0.102	0.000	0.102
two.ways.stepfor	0.094	0.000	0.095