Package: QSutils

Version: 1.4.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings QSutils_1.4.0.tar.gz

StartedAt: 2020-04-15 06:06:20 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 06:07:43 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 83.0 seconds

RetCode: 0

Status:  OK

CheckDir: QSutils.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings QSutils_1.4.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/QSutils.Rcheck’
* using R version 3.6.3 (2020-02-29)
* 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 ‘1.4.0’
* 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-3.10-bioc/R/bin/R CMD INSTALL QSutils
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* installing to library ‘/home/biocbuild/bbs-3.10-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	0.164	0.012	0.183
ConsSeq	0.032	0.000	0.041
CorrectGapsAndNs	0.012	0.000	0.008
DBrule	0.068	0.004	0.080
DNA.dist	0.008	0.004	0.010
DSFT	0.008	0.000	0.009
Diverge	0.000	0.004	0.003
DottedAlignment	0.012	0.000	0.013
FAD	0.004	0.004	0.009
FreqMat	0.020	0.004	0.025
GenerateVars	0.000	0.004	0.005
GenotypeStandards_A-H.fas	0.008	0.000	0.009
GetInfProfile	0.016	0.012	0.027
GetQSData	0.800	0.016	0.823
GetRandomSeq	0	0	0
GiniSimpson	0	0	0
HCq	0.004	0.000	0.005
Hill	0.004	0.000	0.003
IntersectStrandHpls	0.104	0.004	0.309
MutationFreq	0.652	0.020	0.675
MutsTbl	0.020	0.004	0.026
NucleotideDiversity	0.012	0.000	0.010
PolyDist	0.040	0.000	0.041
Rao	0.020	0.000	0.019
ReadAmplSeqs	0.044	0.000	0.045
Renyi	0.004	0.000	0.006
ReportVariants	0.028	0.000	0.025
SegSites	0.016	0.000	0.014
Shannon	0.000	0.000	0.001
SortByMutations	0.608	0.016	0.623
SummaryMuts	0.028	0.000	0.026
TotalMutations	0.024	0.000	0.023
Toy.GapsAndNs.fna	0.068	0.000	0.067
ToyData_10_50_1000.fna	0.036	0.000	0.036
ToyData_FWReads.fna	0.096	0.004	0.101
ToyData_RVReads.fna	0.096	0.000	0.099
UniqueMutations	0.016	0.000	0.014
Unknown-Genotype.fna	0.012	0.000	0.013
fn.ab	0.004	0.004	0.004
geom.series	0.004	0.000	0.003