Back to Multiple platform build/check report for BioC 3.12
ABCDEFGHIJKLMNO[P]QRSTUVWXYZ

CHECK report for peco on merida1

This page was generated on 2021-05-06 12:36:05 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the peco package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1324/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
peco 1.2.0  (landing page)
Chiaowen Joyce Hsiao
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/peco
Branch: RELEASE_3_12
Last Commit: c468fc5
Last Changed Date: 2020-10-27 11:55:13 -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: peco
Version: 1.2.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:peco.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings peco_1.2.0.tar.gz
StartedAt: 2021-05-06 04:36:29 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 04:50:34 -0400 (Thu, 06 May 2021)
EllapsedTime: 845.1 seconds
RetCode: 0
Status:   OK  
CheckDir: peco.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:peco.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings peco_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/peco.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 ‘peco/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘peco’ version ‘1.2.0’
* 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 ‘peco’ 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
fit_trendfilter         44.841  0.896  57.050
cycle_npreg_outsample    2.206  0.047 250.192
fit_bspline              0.687  0.075  12.083
fit_loess                0.690  0.029  12.264
data_transform_quantile  0.636  0.039  12.169
fit_cyclical_many        0.582  0.069 260.852
* 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

peco.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL peco
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘peco’ ...
** 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 (peco)

Tests output


Example timings

peco.Rcheck/peco-Ex.timings

nameusersystemelapsed
circ_dist0.0140.0010.015
cycle_npreg_insample0.0000.0010.001
cycle_npreg_outsample 2.206 0.047250.192
data_transform_quantile 0.636 0.03912.169
fit_bspline 0.687 0.07512.083
fit_cyclical_many 0.582 0.069260.852
fit_loess 0.690 0.02912.264
fit_trendfilter44.841 0.89657.050
intensity2circle0.3670.0260.395
rotation0.0620.0020.065
shift_origin0.0040.0010.005