Package: maSigPro

Version: 1.55.0

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_1.55.0.tar.gz

StartedAt: 2019-04-09 01:57:31 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 02:01:13 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 221.5 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_1.55.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/maSigPro.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* 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 ‘1.55.0’
* 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 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
seeDS         17.840  0.203  18.248
getDS         17.470  0.216  17.895
getDSPatterns 17.397  0.215  17.816
tableDS       17.259  0.224  17.698
ISOdesign     16.979  0.185  17.321
ISOdata       16.325  0.312  16.762
IsoPlot       16.460  0.175  16.790
IsoModel      16.223  0.245  16.676
PodiumChange  16.282  0.168  16.576
T.fit          7.389  0.032   7.464
maSigPro       5.701  0.028   5.784
* 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/3.6/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	16.325	0.312	16.762
ISOdesign	16.979	0.185	17.321
IsoModel	16.223	0.245	16.676
IsoPlot	16.460	0.175	16.790
NBdata	0.002	0.001	0.003
NBdesign	0.001	0.001	0.001
PlotGroups	0.041	0.003	0.050
PlotProfiles	0.011	0.003	0.019
PodiumChange	16.282	0.168	16.576
T.fit	7.389	0.032	7.464
average.rows	0.004	0.001	0.004
data.abiotic	0.006	0.001	0.007
edesign.abiotic	0.003	0.002	0.004
edesignCT	0.001	0.000	0.002
edesignDR	0.001	0.000	0.001
get.siggenes	3.846	0.013	3.887
getDS	17.470	0.216	17.895
getDSPatterns	17.397	0.215	17.816
i.rank	0	0	0
maSigPro	5.701	0.028	5.784
maSigProUsersGuide	0.007	0.003	0.009
make.design.matrix	0.012	0.008	0.023
p.vector	2.676	0.015	2.720
position	0.000	0.000	0.001
reg.coeffs	0.000	0.000	0.001
see.genes	1.069	0.146	1.417
seeDS	17.840	0.203	18.248
stepback	0.038	0.001	0.039
stepfor	0.138	0.001	0.140
suma2Venn	0.093	0.004	0.104
tableDS	17.259	0.224	17.698
two.ways.stepback	0.104	0.001	0.106
two.ways.stepfor	0.171	0.001	0.172