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This page was generated on 2022-04-13 12:08:35 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for QSutils on machv2


To the developers/maintainers of the QSutils package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/QSutils.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1504/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
QSutils 1.12.0  (landing page)
Mercedes Guerrero-Murillo
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/QSutils
git_branch: RELEASE_3_14
git_last_commit: 3942c07
git_last_commit_date: 2021-10-26 12:47:40 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: QSutils
Version: 1.12.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:QSutils.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings QSutils_1.12.0.tar.gz
StartedAt: 2022-04-12 17:11:46 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 17:13:57 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 131.4 seconds
RetCode: 0
Status:   OK  
CheckDir: QSutils.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:QSutils.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings QSutils_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/QSutils.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (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 ‘1.12.0’
* 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


Installation output

QSutils.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL QSutils
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/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)

Tests output


Example timings

QSutils.Rcheck/QSutils-Ex.timings

nameusersystemelapsed
Collapse0.2110.0190.232
ConsSeq0.0430.0060.049
CorrectGapsAndNs0.0110.0030.013
DBrule0.0770.0080.085
DNA.dist0.0130.0020.015
DSFT0.0070.0010.009
Diverge0.0050.0000.004
DottedAlignment0.0130.0020.016
FAD0.0110.0020.013
FreqMat0.0310.0080.038
GenerateVars0.0060.0020.008
GenotypeStandards_A-H.fas0.0100.0020.013
GetInfProfile0.0370.0060.043
GetQSData0.9570.0841.045
GetRandomSeq0.0000.0010.001
GiniSimpson0.0010.0010.002
HCq0.0080.0020.010
Hill0.0060.0020.008
IntersectStrandHpls0.1420.0210.167
MutationFreq0.6940.0770.773
MutsTbl0.0310.0060.037
NucleotideDiversity0.0120.0020.013
PolyDist0.0500.0020.052
Rao0.0200.0020.022
ReadAmplSeqs0.0470.0030.050
Renyi0.0060.0020.008
ReportVariants0.0310.0020.032
SegSites0.0190.0010.021
Shannon0.0010.0010.003
SortByMutations0.7230.0430.767
SummaryMuts0.0310.0020.033
TotalMutations0.0300.0010.033
Toy.GapsAndNs.fna0.0880.0040.093
ToyData_10_50_1000.fna0.0470.0030.049
ToyData_FWReads.fna0.1160.0040.120
ToyData_RVReads.fna0.1330.0110.143
UniqueMutations0.0180.0010.018
Unknown-Genotype.fna0.0140.0010.015
fn.ab0.0070.0020.009
geom.series0.0040.0010.005