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This page was generated on 2021-10-15 15:05:49 -0400 (Fri, 15 Oct 2021).

CHECK results for QSutils on nebbiolo1

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? here 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 1478/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
QSutils 1.10.0  (landing page)
Mercedes Guerrero-Murillo
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/QSutils
git_branch: RELEASE_3_13
git_last_commit: 74dbca7
git_last_commit_date: 2021-05-19 12:38:58 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 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: 1.10.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings QSutils_1.10.0.tar.gz
StartedAt: 2021-10-14 11:11:27 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 11:12:39 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 71.6 seconds
RetCode: 0
Status:   OK  
CheckDir: QSutils.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:QSutils.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings QSutils_1.10.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/QSutils.Rcheck’
* using R version 4.1.1 (2021-08-10)
* 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 ‘1.10.0’
* 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

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL QSutils
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-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)

Tests output


Example timings

QSutils.Rcheck/QSutils-Ex.timings

nameusersystemelapsed
Collapse0.0970.0200.117
ConsSeq0.0290.0010.029
CorrectGapsAndNs0.0000.0060.006
DBrule0.0490.0050.055
DNA.dist0.0090.0000.008
DSFT0.0060.0000.005
Diverge0.0020.0000.003
DottedAlignment0.0100.0040.014
FAD0.0030.0040.007
FreqMat0.0120.0060.018
GenerateVars0.0030.0010.003
GenotypeStandards_A-H.fas0.0030.0040.008
GetInfProfile0.0110.0080.020
GetQSData0.3300.0360.366
GetRandomSeq000
GiniSimpson0.0010.0000.001
HCq0.0060.0000.005
Hill0.0010.0040.004
IntersectStrandHpls0.0630.0070.073
MutationFreq0.2920.0090.300
MutsTbl0.0150.0030.018
NucleotideDiversity0.0070.0000.008
PolyDist0.0220.0000.021
Rao0.0130.0000.014
ReadAmplSeqs0.0260.0000.027
Renyi0.0010.0040.004
ReportVariants0.0170.0000.017
SegSites0.0100.0000.009
Shannon0.0010.0000.001
SortByMutations0.5770.0040.580
SummaryMuts0.0150.0000.015
TotalMutations0.0130.0000.013
Toy.GapsAndNs.fna0.0390.0160.054
ToyData_10_50_1000.fna0.0200.0040.024
ToyData_FWReads.fna0.0620.0000.063
ToyData_RVReads.fna0.0660.0000.067
UniqueMutations0.0080.0000.008
Unknown-Genotype.fna0.0090.0000.009
fn.ab0.0040.0000.004
geom.series0.0020.0000.001