Package: QSutils

Version: 1.0.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:QSutils.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings QSutils_1.0.0.tar.gz

StartedAt: 2019-04-16 02:07:35 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 02:09:01 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 86.2 seconds

RetCode: 0

Status:  OK

CheckDir: QSutils.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:QSutils.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings QSutils_1.0.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/QSutils.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 ‘QSutils/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘QSutils’ version ‘1.0.0’
* 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 ‘QSutils’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* 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 QSutils
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘QSutils’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (QSutils)

name	user	system	elapsed
Collapse	0.146	0.013	0.161
ConsSeq	0.029	0.003	0.033
CorrectGapsAndNs	0.011	0.002	0.014
DBrule	0.066	0.008	0.075
DNA.dist	0.008	0.001	0.011
DSFT	0.006	0.001	0.007
Diverge	0.003	0.000	0.003
DottedAlignment	0.013	0.002	0.014
FAD	0.011	0.002	0.013
FreqMat	0.022	0.003	0.025
GenerateVars	0.004	0.000	0.006
GenotypeStandards_A-H.fas	0.010	0.002	0.012
GetInfProfile	0.030	0.006	0.036
GetQSData	0.476	0.066	0.546
GetRandomSeq	0.000	0.000	0.001
GiniSimpson	0.000	0.000	0.001
HCq	0.005	0.001	0.006
Hill	0.003	0.001	0.004
IntersectStrandHpls	0.122	0.004	0.127
MutationFreq	0.413	0.045	0.458
MutsTbl	0.017	0.002	0.018
NucleotideDiversity	0.008	0.000	0.009
PolyDist	0.042	0.001	0.043
Rao	0.020	0.001	0.020
ReadAmplSeqs	0.036	0.003	0.039
Renyi	0.004	0.001	0.004
ReportVariants	0.023	0.003	0.027
SegSites	0.015	0.003	0.018
Shannon	0.001	0.000	0.001
SortByMutations	0.526	0.052	0.579
SummaryMuts	0.017	0.000	0.018
TotalMutations	0.017	0.000	0.017
Toy.GapsAndNs.fna	0.048	0.002	0.049
ToyData_10_50_1000.fna	0.025	0.001	0.026
ToyData_FWReads.fna	0.120	0.007	0.129
ToyData_RVReads.fna	0.131	0.008	0.141
UniqueMutations	0.017	0.001	0.018
Unknown-Genotype.fna	0.014	0.001	0.014
fn.ab	0.005	0.001	0.006
geom.series	0.005	0.001	0.005