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This page was generated on 2023-04-12 11:06:15 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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 mirTarRnaSeq on lconway


To the developers/maintainers of the mirTarRnaSeq package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mirTarRnaSeq.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 1224/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mirTarRnaSeq 1.6.0  (landing page)
Mercedeh Movassagh
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/mirTarRnaSeq
git_branch: RELEASE_3_16
git_last_commit: 12bc350
git_last_commit_date: 2022-11-01 11:24:32 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: mirTarRnaSeq
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mirTarRnaSeq_1.6.0.tar.gz
StartedAt: 2023-04-10 21:16:37 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 21:17:38 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 61.1 seconds
RetCode: 0
Status:   OK  
CheckDir: mirTarRnaSeq.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mirTarRnaSeq_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/mirTarRnaSeq.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mirTarRnaSeq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mirTarRnaSeq’ version ‘1.6.0’
* 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 ‘mirTarRnaSeq’ 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 ... NOTE
Package in Depends field not imported from: ‘ggplot2’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.16-bioc/meat/mirTarRnaSeq.Rcheck/00check.log’
for details.



Installation output

mirTarRnaSeq.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘mirTarRnaSeq’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (mirTarRnaSeq)

Tests output


Example timings

mirTarRnaSeq.Rcheck/mirTarRnaSeq-Ex.timings

nameusersystemelapsed
combiner0.0040.0020.007
corMirnaRna0.0570.0090.066
corMirnaRnaMiranda0.1140.0220.136
downloadMirandaFile000
drawCorPlot000
drawInterPlots0.0210.0010.022
fdrSig0.4860.0140.501
finInterResult0.0010.0000.001
geneVari0.0000.0000.001
getInputSpecies0.2590.0270.288
glm_gaussian0.0010.0000.001
glm_multi0.0010.0000.000
glm_nb0.0000.0000.001
glm_poisson0.0000.0000.001
glm_zeroinfl0.0010.0000.001
glm_zeroinfl_negbin000
glm_zeroinfl_poisson000
importMirandaFile000
makeFormulaRightSide000
miRanComp0.0240.0040.028
miRandaIntersect0.0590.0110.070
mirRnaDensityCor0.0210.0010.022
mirRnaDensityInter000
mirRnaHeatmap0.6020.0240.627
mirRnaHeatmapDiff0.0840.0040.089
mirandaIntersectInter0.0120.0000.012
modelAIC0.0580.0040.063
modelCoefficients0.0000.0000.001
modelData000
modelModelName000
modelModelPvalue0.0010.0010.000
modelTermPvalues0.0010.0000.002
modelsFilter0.0000.0000.001
one2OneRnaMiRNA000
plotFit0.0080.0010.009
plotResiduals0.0220.0020.024
plotTerms0.0050.0000.006
runAllMirnaModels0.5390.0180.561
runModels0.4710.0100.483
sampCorRnaMirna0.4200.0860.509
threshSig000
threshSigInter0.0010.0000.001
twoTimePoint000
twoTimePointSamp0.0000.0000.001
tzTrans0.0040.0010.004