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This page was generated on 2022-08-05 14:20:26 -0400 (Fri, 05 Aug 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4361
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4179
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for RiboCrypt on merida1


To the developers/maintainers of the RiboCrypt package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RiboCrypt.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 1648/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RiboCrypt 1.2.0  (landing page)
Michal Swirski
Snapshot Date: 2022-08-04 13:55:18 -0400 (Thu, 04 Aug 2022)
git_url: https://git.bioconductor.org/packages/RiboCrypt
git_branch: RELEASE_3_15
git_last_commit: d80a3e1
git_last_commit_date: 2022-04-26 12:19:48 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: RiboCrypt
Version: 1.2.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RiboCrypt.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RiboCrypt_1.2.0.tar.gz
StartedAt: 2022-08-05 06:54:38 -0400 (Fri, 05 Aug 2022)
EndedAt: 2022-08-05 07:02:41 -0400 (Fri, 05 Aug 2022)
EllapsedTime: 482.8 seconds
RetCode: 0
Status:   OK  
CheckDir: RiboCrypt.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RiboCrypt.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RiboCrypt_1.2.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/RiboCrypt.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RiboCrypt/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RiboCrypt’ 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 ‘RiboCrypt’ 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 ... NOTE
createSinglePlot: no visible binding for global variable ‘position’
createSinglePlot: no visible binding for global variable ‘frame’
getIndexes: no visible global function definition for ‘nrun’
getPlotAnimate: no visible binding for global variable ‘position’
getPlotAnimate: no visible binding for global variable ‘frame’
getRelativeFrames: no visible binding for global variable ‘cum_width’
getRelativeFrames: no visible binding for global variable ‘rel_frame’
getRiboProfile: no visible binding for global variable ‘frame’
getStackProfile: no visible global function definition for ‘.’
getStackProfile: no visible binding for global variable ‘position’
getStackProfile: no visible binding for global variable ‘frame’
multiOmicsPlot_animate: no visible global function definition for
  ‘wmsg’
multiOmicsPlot_animate: no visible global function definition for ‘is’
multiOmicsPlot_list: no visible global function definition for ‘wmsg’
multiOmicsPlot_list: no visible global function definition for ‘is’
nt_bar: no visible binding for global variable ‘y’
Undefined global functions or variables:
  . cum_width frame is nrun position rel_frame wmsg y
Consider adding
  importFrom("graphics", "frame")
  importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                         user system elapsed
multiOmicsPlot_ORFikExp 7.862  1.219   9.017
multiOmicsPlot_animate  5.378  1.269   6.574
multiOmicsPlot_list     4.776  1.203   5.906
* 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-3.15-bioc/meat/RiboCrypt.Rcheck/00check.log’
for details.



Installation output

RiboCrypt.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RiboCrypt
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘RiboCrypt’ ...
** 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 (RiboCrypt)

Tests output


Example timings

RiboCrypt.Rcheck/RiboCrypt-Ex.timings

nameusersystemelapsed
RiboCrypt.template.experiment0.9470.0931.042
multiOmicsPlot_ORFikExp7.8621.2199.017
multiOmicsPlot_animate5.3781.2696.574
multiOmicsPlot_list4.7761.2035.906