Back to Multiple platform build/check report for BioC 3.12
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

CHECK report for sscu on merida1

This page was generated on 2021-05-06 12:36:57 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the sscu package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1788/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sscu 2.20.0  (landing page)
Yu Sun
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/sscu
Branch: RELEASE_3_12
Last Commit: 820100b
Last Changed Date: 2020-10-27 11:13:06 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository

Summary

Package: sscu
Version: 2.20.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:sscu.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings sscu_2.20.0.tar.gz
StartedAt: 2021-05-06 06:36:00 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 06:38:06 -0400 (Thu, 06 May 2021)
EllapsedTime: 126.6 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: sscu.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:sscu.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings sscu_2.20.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/sscu.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 ‘sscu/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sscu’ version ‘2.20.0’
* 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 ‘sscu’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 files in ‘vignettes’ ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  ‘sscu.Rmd’
Files named as vignettes but with no recognized vignette engine:
   ‘vignettes/sscu.Rmd’
(Is a VignetteBuilder field missing?)
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
op_corre_NCprime 18.784  0.116  18.919
op_corre_CodonW  17.474  0.207  17.708
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING
See
  ‘/Users/biocbuild/bbs-3.12-bioc/meat/sscu.Rcheck/00check.log’
for details.



Installation output

sscu.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘sscu’ ...
** using staged installation
** R
** 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 (sscu)

Tests output


Example timings

sscu.Rcheck/sscu-Ex.timings

nameusersystemelapsed
akashi_test0.0150.0020.019
genomic_gc30.3570.0270.386
low_frequency_op0.8430.0440.890
op_corre_CodonW17.474 0.20717.708
op_corre_NCprime18.784 0.11618.919
op_highly1.0920.0171.111
op_highly_stats0.9600.0240.985
s_index0.5160.0230.539