Lanyu Zhang
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/rnaEditr |
| git_branch: RELEASE_3_13 |
| git_last_commit: 377f691 |
| git_last_commit_date: 2021-05-19 12:56:26 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:50 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the rnaEditr package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rnaEditr.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. |
| Package 1600/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rnaEditr 1.2.0 (landing page) Lanyu Zhang
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: rnaEditr |
| Version: 1.2.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rnaEditr_1.2.0.tar.gz |
| StartedAt: 2021-10-14 23:15:50 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 23:21:05 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 315.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: rnaEditr.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings rnaEditr_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/rnaEditr.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘rnaEditr/DESCRIPTION’ ... OK * this is package ‘rnaEditr’ 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: .git_fetch_output.txt .git_merge_output.txt 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 ‘rnaEditr’ 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 * 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-3.13-bioc/meat/rnaEditr.Rcheck/00check.log’ for details.
rnaEditr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL rnaEditr ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘rnaEditr’ ... ** 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 (rnaEditr)
rnaEditr.Rcheck/tests/testthat.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things"
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(rnaEditr)
>
> test_check("rnaEditr")
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|====== |12.5% ~1 s remaining
|============= | 25% ~1 s remaining
|=================== |37.5% ~1 s remaining
|========================== | 50% ~1 s remaining
|================================ |62.5% ~0 s remaining
|======================================= | 75% ~0 s remaining
|============================================= |87.5% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|=== |7.142857% ~1 s remaining
|======= |14.28571% ~1 s remaining
|=========== |21.42857% ~1 s remaining
|============== |28.57143% ~1 s remaining
|================== |35.71429% ~1 s remaining
|====================== |42.85714% ~1 s remaining
|========================== | 50% ~1 s remaining
|============================= |57.14286% ~0 s remaining
|================================= |64.28571% ~0 s remaining
|===================================== |71.42857% ~0 s remaining
|======================================== |78.57143% ~0 s remaining
|============================================ |85.71429% ~0 s remaining
|================================================ |92.85714% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|=== |7.142857% ~0 s remaining
|======= |14.28571% ~0 s remaining
|=========== |21.42857% ~0 s remaining
|============== |28.57143% ~0 s remaining
|================== |35.71429% ~0 s remaining
|====================== |42.85714% ~0 s remaining
|========================== | 50% ~0 s remaining
|============================= |57.14286% ~0 s remaining
|================================= |64.28571% ~0 s remaining
|===================================== |71.42857% ~0 s remaining
|======================================== |78.57143% ~0 s remaining
|============================================ |85.71429% ~0 s remaining
|================================================ |92.85714% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|================= |33.33333% ~1 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|==== |7.692308% ~1 s remaining
|======== |15.38462% ~1 s remaining
|============ |23.07692% ~1 s remaining
|================ |30.76923% ~1 s remaining
|==================== |38.46154% ~1 s remaining
|======================== |46.15385% ~1 s remaining
|============================ |53.84615% ~1 s remaining
|================================ |61.53846% ~1 s remaining
|==================================== |69.23077% ~0 s remaining
|======================================== |76.92308% ~0 s remaining
|============================================ |84.61538% ~0 s remaining
|================================================ |92.30769% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|==== |7.692308% ~1 s remaining
|======== |15.38462% ~1 s remaining
|============ |23.07692% ~1 s remaining
|================ |30.76923% ~1 s remaining
|==================== |38.46154% ~1 s remaining
|======================== |46.15385% ~1 s remaining
|============================ |53.84615% ~1 s remaining
|================================ |61.53846% ~1 s remaining
|==================================== |69.23077% ~0 s remaining
|======================================== |76.92308% ~0 s remaining
|============================================ |84.61538% ~0 s remaining
|================================================ |92.30769% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 1 s
| | 0%
|==== |7.692308% ~0 s remaining
|======== |15.38462% ~0 s remaining
|============ |23.07692% ~0 s remaining
|================ |30.76923% ~0 s remaining
|==================== |38.46154% ~0 s remaining
|======================== |46.15385% ~0 s remaining
|============================ |53.84615% ~0 s remaining
|================================ |61.53846% ~0 s remaining
|==================================== |69.23077% ~0 s remaining
|======================================== |76.92308% ~0 s remaining
|============================================ |84.61538% ~0 s remaining
|================================================ |92.30769% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
>
> proc.time()
user system elapsed
24.706 0.843 25.542
rnaEditr.Rcheck/rnaEditr-Ex.timings
| name | user | system | elapsed | |
| AddMetaData | 1.469 | 0.029 | 1.499 | |
| AllCloseByRegions | 0.765 | 0.035 | 0.800 | |
| AllCoeditedRegions | 0.853 | 0.053 | 0.906 | |
| AnnotateResults | 3.523 | 0.053 | 3.578 | |
| CountSamplesPerGroup | 0.002 | 0.000 | 0.003 | |
| CreateEditingTable | 0.047 | 0.003 | 0.051 | |
| CreateOutputDF | 0.031 | 0.003 | 0.034 | |
| CreateRdrop | 0.016 | 0.003 | 0.019 | |
| FindCorrelatedRegions | 0.016 | 0.002 | 0.019 | |
| GetMinPairwiseCor | 0.005 | 0.001 | 0.007 | |
| GetSitesLocations | 0.136 | 0.003 | 0.139 | |
| MakeModelFormula | 0.001 | 0.000 | 0.001 | |
| MarkCoeditedSites | 0.015 | 0.003 | 0.017 | |
| OrderSitesByLocation | 0.002 | 0.000 | 0.002 | |
| PlotEditingCorrelations | 0.907 | 0.023 | 0.931 | |
| RegionSummaryMethod | 0.073 | 0.004 | 0.077 | |
| SingleCloseByRegion | 0.181 | 0.004 | 0.185 | |
| SingleCoeditedRegion | 0.218 | 0.008 | 0.225 | |
| SitesToRegion | 0.062 | 0.003 | 0.066 | |
| SummarizeAllRegions | 2.146 | 0.044 | 2.193 | |
| SummarizeSingleRegion | 0.157 | 0.005 | 0.162 | |
| TestAssociations | 2.302 | 0.026 | 2.329 | |
| TestSingleRegion | 0.051 | 0.003 | 0.054 | |
| TransformToGR | 0.106 | 0.001 | 0.107 | |