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This page was generated on 2023-05-31 05:44:38 -0000 (Wed, 31 May 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch644.3.0 (2023-04-21) -- "Already Tomorrow" 4219
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CHECK results for mirTarRnaSeq on kunpeng1


To the developers/maintainers of the mirTarRnaSeq package:
- 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 Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 1232/2197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mirTarRnaSeq 1.9.0  (landing page)
Mercedeh Movassagh
Snapshot Date: 2023-05-29 10:19:22 -0000 (Mon, 29 May 2023)
git_url: https://git.bioconductor.org/packages/mirTarRnaSeq
git_branch: devel
git_last_commit: 2a85e4f
git_last_commit_date: 2023-04-25 15:28:16 -0000 (Tue, 25 Apr 2023)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

Summary

Package: mirTarRnaSeq
Version: 1.9.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings mirTarRnaSeq_1.9.0.tar.gz
StartedAt: 2023-05-30 12:30:44 -0000 (Tue, 30 May 2023)
EndedAt: 2023-05-30 12:36:04 -0000 (Tue, 30 May 2023)
EllapsedTime: 319.4 seconds
RetCode: 0
Status:   OK  
CheckDir: mirTarRnaSeq.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings mirTarRnaSeq_1.9.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/mirTarRnaSeq.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘mirTarRnaSeq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mirTarRnaSeq’ version ‘1.9.0’
* 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 loading without being on the library search path ... OK
* checking startup messages can be suppressed ... 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 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 ...
  ‘mirTarRnaSeq.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.18-bioc/meat/mirTarRnaSeq.Rcheck/00check.log’
for details.



Installation output

mirTarRnaSeq.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL mirTarRnaSeq
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.3.0/site-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
combiner0.0090.0000.009
corMirnaRna0.1170.0080.126
corMirnaRnaMiranda0.2120.0120.224
downloadMirandaFile000
drawCorPlot000
drawInterPlots0.0410.0080.049
fdrSig0.7200.0200.741
finInterResult0.0010.0000.001
geneVari0.0010.0000.000
getInputSpecies0.3630.0240.388
glm_gaussian0.0000.0000.001
glm_multi0.0000.0000.001
glm_nb000
glm_poisson000
glm_zeroinfl0.0010.0000.001
glm_zeroinfl_negbin0.0010.0000.001
glm_zeroinfl_poisson000
importMirandaFile000
makeFormulaRightSide000
miRanComp0.0350.0120.047
miRandaIntersect0.0250.0000.026
mirRnaDensityCor0.0410.0040.045
mirRnaDensityInter000
mirRnaHeatmap0.9490.0200.970
mirRnaHeatmapDiff0.1090.0000.109
mirandaIntersectInter0.0190.0000.018
modelAIC0.080.000.08
modelCoefficients0.0000.0010.001
modelData000
modelModelName000
modelModelPvalue000
modelTermPvalues0.0010.0000.001
modelsFilter000
one2OneRnaMiRNA000
plotFit0.0050.0030.008
plotResiduals0.0090.0010.009
plotTerms0.0040.0000.004
runAllMirnaModels0.6900.0110.703
runModels0.6930.0090.701
sampCorRnaMirna1.1240.0561.181
threshSig000
threshSigInter0.0000.0020.002
twoTimePoint000
twoTimePointSamp000
tzTrans0.0090.0000.008