Package: QSutils

Version: 1.2.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings QSutils_1.2.0.tar.gz

StartedAt: 2019-10-16 04:13:01 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 04:14:21 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 80.4 seconds

RetCode: 0

Status:  OK

CheckDir: QSutils.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:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings QSutils_1.2.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/QSutils.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (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 ‘1.2.0’
* 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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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL QSutils
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘QSutils’ ...
** using staged installation
** 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 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 (QSutils)

name	user	system	elapsed
Collapse	0.147	0.007	0.221
ConsSeq	0.028	0.003	0.037
CorrectGapsAndNs	0.005	0.004	0.008
DBrule	0.059	0.013	0.080
DNA.dist	0.010	0.000	0.011
DSFT	0.009	0.000	0.009
Diverge	0.003	0.000	0.003
DottedAlignment	0.012	0.000	0.013
FAD	0.009	0.000	0.009
FreqMat	0.017	0.007	0.024
GenerateVars	0.005	0.000	0.005
GenotypeStandards_A-H.fas	0.009	0.000	0.008
GetInfProfile	0.028	0.000	0.028
GetQSData	0.549	0.012	0.561
GetRandomSeq	0	0	0
GiniSimpson	0.000	0.001	0.001
HCq	0.006	0.002	0.006
Hill	0.006	0.000	0.005
IntersectStrandHpls	0.114	0.000	0.125
MutationFreq	0.593	0.020	0.613
MutsTbl	0.020	0.004	0.024
NucleotideDiversity	0.009	0.000	0.009
PolyDist	0.036	0.000	0.036
Rao	0.018	0.000	0.018
ReadAmplSeqs	0.038	0.000	0.038
Renyi	0.005	0.000	0.006
ReportVariants	0.024	0.000	0.024
SegSites	0.014	0.000	0.013
Shannon	0.001	0.000	0.001
SortByMutations	0.633	0.000	0.632
SummaryMuts	0.024	0.000	0.025
TotalMutations	0.022	0.000	0.023
Toy.GapsAndNs.fna	0.065	0.000	0.064
ToyData_10_50_1000.fna	0.036	0.000	0.037
ToyData_FWReads.fna	0.099	0.000	0.098
ToyData_RVReads.fna	0.094	0.000	0.094
UniqueMutations	0.014	0.000	0.015
Unknown-Genotype.fna	0.013	0.000	0.012
fn.ab	0.004	0.000	0.005
geom.series	0.003	0.000	0.004