Package: FoldGO

Version: 1.2.3

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:FoldGO.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings FoldGO_1.2.3.tar.gz

StartedAt: 2019-10-16 02:54:43 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 02:57:50 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 186.8 seconds

RetCode: 0

Status:  OK

CheckDir: FoldGO.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:FoldGO.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings FoldGO_1.2.3.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/FoldGO.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘FoldGO/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘FoldGO’ version ‘1.2.3’
* package encoding: UTF-8
* 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 ‘FoldGO’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                               user system elapsed
plot-FoldSpecTest-ANY-method 10.225  0.083  10.309
fagroupstopgo_class           9.515  0.591  10.108
gafreader_class               5.823  1.210   7.035
foldspectest_class            5.591  0.105   5.697
* 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 FoldGO
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘FoldGO’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB

** inst
** byte-compile and prepare package for lazy loading
in method for ‘getAnnotation’ with signature ‘"MgsaSets"’: no definition for class “MgsaSets”
** help
*** installing help indices
** building package indices
** installing vignettes
** 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 (FoldGO)

name	user	system	elapsed
examdata_bg	0.025	0.009	0.035
examdata_degs	0.001	0.002	0.003
examdata_objs	0.004	0.004	0.008
fagroupstopgo_class	9.515	0.591	10.108
foldspectest_class	5.591	0.105	5.697
gafreader_class	5.823	1.210	7.035
genegroups_class	0.111	0.071	0.181
getAnnotation	0.001	0.000	0.001
getWholeIntName	4.310	0.034	4.344
plot-FoldSpecTest-ANY-method	10.225	0.083	10.309