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CHECK report for LinkHD on merida1

This page was generated on 2021-05-06 12:35:29 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the LinkHD package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 959/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LinkHD 1.4.0  (landing page)
"Laura M Zingaretti"
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/LinkHD
Branch: RELEASE_3_12
Last Commit: 5ac4205
Last Changed Date: 2020-10-27 11:50:38 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: LinkHD
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:LinkHD.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings LinkHD_1.4.0.tar.gz
StartedAt: 2021-05-06 03:08:24 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 03:12:23 -0400 (Thu, 06 May 2021)
EllapsedTime: 239.5 seconds
RetCode: 0
Status:   OK  
CheckDir: LinkHD.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:LinkHD.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings LinkHD_1.4.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/LinkHD.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘LinkHD/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘LinkHD’ version ‘1.4.0’
* 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 ‘LinkHD’ 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 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 ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

LinkHD.Rcheck/00install.out

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL LinkHD
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘LinkHD’ ...
** 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 (LinkHD)

Tests output


Example timings

LinkHD.Rcheck/LinkHD-Ex.timings

nameusersystemelapsed
Compromise_matrix-methods1.4440.1731.619
DataProcessing0.0140.0020.015
DistStatis-Class0.0010.0000.002
DistStatis-CompromisePlot0.8430.0280.872
DistStatis-CorrelationPlot0.8370.0220.861
DistStatis-GlobalPlot1.6660.0181.686
Euclid_Im-methods0.5800.0130.593
Inertia_RV-methods0.5930.0180.610
Inertia_comp-methods0.5970.0200.618
LinkData-LinkData0.5960.0080.605
OTU2Taxa-OTU2Taxa4.3870.1144.505
RQO-methods1.1130.0391.154
Read_Data000
Ruminotypes0.0010.0010.002
Taraoceans0.0020.0020.003
Trajectories-methods1.4270.4911.921
VarSelection-Class0.0010.0000.001
VarSelection2.8720.0412.917
VarTable-methods2.4230.0202.444
Var_coordinates-methods2.7940.0202.818
Variables-methods2.6990.0222.724
compromise_coords-methods0.5480.0160.564
correl-methods0.5060.0160.521
dAB-dAB0.9990.0191.019
sign_values-methods2.8870.0192.908