| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:36:25 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the ribor package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1528/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ribor 1.2.0 (landing page) Michael Geng
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: ribor |
| Version: 1.2.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ribor.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ribor_1.2.0.tar.gz |
| StartedAt: 2021-05-06 05:28:22 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 05:30:10 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 107.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ribor.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ribor.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ribor_1.2.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/ribor.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 ‘ribor/DESCRIPTION’ ... OK
* this is package ‘ribor’ 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 ... NOTE
Found the following hidden files and directories:
.travis.yml
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 ‘ribor’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.1Mb
sub-directories of 1Mb or more:
extdata 4.7Mb
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* 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: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.12-bioc/meat/ribor.Rcheck/00check.log’
for details.
ribor.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL ribor ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘ribor’ ... ** 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 (ribor)
ribor.Rcheck/tests/testthat.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
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(ribor)
>
> test_check("ribor")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 88 ]
>
> proc.time()
user system elapsed
25.745 1.186 26.959
ribor.Rcheck/ribor-Ex.timings
| name | user | system | elapsed | |
| get_coverage | 0.414 | 0.058 | 0.474 | |
| get_experiments | 0.127 | 0.013 | 0.140 | |
| get_info | 0.159 | 0.016 | 0.176 | |
| get_length_distribution | 0.270 | 0.017 | 0.288 | |
| get_metadata | 0.083 | 0.007 | 0.091 | |
| get_metagene | 0.374 | 0.026 | 0.399 | |
| get_reference_names | 0.701 | 0.041 | 0.786 | |
| get_region_coordinates | 2.176 | 0.048 | 2.230 | |
| get_region_counts | 0.250 | 0.019 | 0.269 | |
| get_region_lengths | 2.475 | 0.048 | 2.529 | |
| get_rnaseq | 0.357 | 0.021 | 0.379 | |
| get_tidy_metagene | 0.890 | 0.050 | 0.942 | |
| plot_length_distribution | 1.311 | 0.039 | 1.353 | |
| plot_metagene | 1.389 | 0.047 | 1.437 | |
| plot_region_counts | 1.295 | 0.035 | 1.332 | |
| rename_default | 0.000 | 0.000 | 0.001 | |
| rename_transcripts | 1.456 | 0.018 | 1.474 | |
| ribo-class | 1.585 | 0.025 | 1.610 | |
| set_aliases | 1.792 | 0.018 | 1.811 | |