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This page was generated on 2023-03-16 11:02:07 -0400 (Thu, 16 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm64R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" 4115
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CHECK results for OmicsLonDA on kjohnson2


To the developers/maintainers of the OmicsLonDA package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1397/2189HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OmicsLonDA 1.15.0  (landing page)
Ahmed A. Metwally
Snapshot Date: 2023-03-13 13:00:01 -0400 (Mon, 13 Mar 2023)
git_url: https://git.bioconductor.org/packages/OmicsLonDA
git_branch: master
git_last_commit: eaf2323
git_last_commit_date: 2022-11-01 11:19:45 -0400 (Tue, 01 Nov 2022)
kjohnson2macOS 12.6.1 Monterey / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: OmicsLonDA
Version: 1.15.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:OmicsLonDA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings OmicsLonDA_1.15.0.tar.gz
StartedAt: 2023-03-14 09:07:38 -0400 (Tue, 14 Mar 2023)
EndedAt: 2023-03-14 09:09:08 -0400 (Tue, 14 Mar 2023)
EllapsedTime: 90.6 seconds
RetCode: 0
Status:   OK  
CheckDir: OmicsLonDA.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:OmicsLonDA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings OmicsLonDA_1.15.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/OmicsLonDA.Rcheck’
* using R Under development (unstable) (2023-01-10 r83596)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 13.0.0 (clang-1300.0.29.3)
    GNU Fortran (GCC) 12.0.1 20220312 (experimental)
* running under: macOS Monterey 12.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘OmicsLonDA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘OmicsLonDA’ version ‘1.15.0’
* 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 ‘OmicsLonDA’ 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 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 ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 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

OmicsLonDA.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘OmicsLonDA’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (OmicsLonDA)

Tests output

OmicsLonDA.Rcheck/tests/testthat.Rout


R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(OmicsLonDA)
> 
> test_check("OmicsLonDA")
[1] "Disease" "Healthy"
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
> 
> proc.time()
   user  system elapsed 
  7.092   0.234   7.320 

Example timings

OmicsLonDA.Rcheck/OmicsLonDA-Ex.timings

nameusersystemelapsed
adjustBaseline0.9630.0200.983
curveFitting1.0650.0201.087
findSigInterval0.0550.0030.059
omicslonda3.9580.1274.085
permutationMC3.5490.0903.639
testStat0.1020.0030.106
testStatPermutation3.5780.1053.683
visualizeArea0.5470.0290.579
visualizeFeature1.2410.0201.261
visualizeFeatureSpline4.5180.0804.597
visualizeTestStatHistogram0.2500.0150.276