Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2021-11-26 15:05:46 -0500 (Fri, 26 Nov 2021).

CHECK results for debCAM on machv2

To the developers/maintainers of the debCAM package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/debCAM.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 459/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
debCAM 1.12.0  (landing page)
Lulu Chen
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/debCAM
git_branch: RELEASE_3_14
git_last_commit: 66667aa
git_last_commit_date: 2021-10-26 12:54:13 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 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: debCAM
Version: 1.12.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:debCAM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings debCAM_1.12.0.tar.gz
StartedAt: 2021-11-25 15:40:00 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 15:44:21 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 261.4 seconds
RetCode: 0
Status:   OK  
CheckDir: debCAM.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:debCAM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings debCAM_1.12.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/debCAM.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘debCAM/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘debCAM’ version ‘1.12.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘debCAM’ 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
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
MGsforA      26.898  0.220  27.128
reselectMG   14.911  0.157  15.073
redoASest    14.820  0.127  14.952
CAMASest     14.570  0.160  14.730
CAMPrep      14.489  0.142  14.640
CAMMGCluster 14.060  0.178  14.253
AS-accessor  13.725  0.383  14.120
PCAmat       13.927  0.128  14.060
CAM          13.831  0.206  14.068
XWProj        7.039  0.406   7.446
* 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.14-bioc/meat/debCAM.Rcheck/00check.log’
for details.



Installation output

debCAM.Rcheck/00install.out

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL debCAM
###
##############################################################################
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘debCAM’ ...
** using staged installation
** R
** data
** 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 (debCAM)

Tests output

debCAM.Rcheck/tests/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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(debCAM)
> 
> test_check("debCAM")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
> 
> proc.time()
   user  system elapsed 
  5.094   0.372   5.357 

Example timings

debCAM.Rcheck/debCAM-Ex.timings

nameusersystemelapsed
AS-accessor13.725 0.38314.120
AfromMarkers0.4600.0120.471
CAM13.831 0.20614.068
CAMASest14.57 0.1614.73
CAMMGCluster14.060 0.17814.253
CAMPrep14.489 0.14214.640
MDL000
MGsforA26.898 0.22027.128
MGstatistic0.6510.0110.662
PCAmat13.927 0.12814.060
XWProj7.0390.4067.446
cornerSort0.1090.0150.090
redoASest14.820 0.12714.952
reselectMG14.911 0.15715.073
sffsHull0.0420.0000.042
simplexplot1.8770.1051.987