Lanyu Zhang
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/rnaEditr |
| git_branch: RELEASE_3_16 |
| git_last_commit: b3f5c8e |
| git_last_commit_date: 2022-11-01 11:23:04 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:06:23 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
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? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1700/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rnaEditr 1.8.0 (landing page) Lanyu Zhang
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: rnaEditr |
| Version: 1.8.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rnaEditr_1.8.0.tar.gz |
| StartedAt: 2023-04-10 22:17:32 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 22:21:23 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 231.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: rnaEditr.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rnaEditr_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/rnaEditr.Rcheck’ * using R version 4.2.3 (2023-03-15) * 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 ‘1.8.0’ * 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 ‘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: OK
rnaEditr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL rnaEditr ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/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 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 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 0 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|====== |12.5% ~0 s remaining
|============= | 25% ~0 s remaining
|=================== |37.5% ~0 s remaining
|========================== | 50% ~0 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% ~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 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% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|==== |7.692308% ~1 s remaining
|======== |15.38462% ~1 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 1 s
| | 0%
|================= |33.33333% ~0 s remaining
|================================== |66.66667% ~0 s remaining
|====================================================|100% ~0 s remaining
|====================================================|100% Completed after 0 s
| | 0%
|==== |7.692308% ~1 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 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
15.184 0.659 15.857
rnaEditr.Rcheck/rnaEditr-Ex.timings
| name | user | system | elapsed | |
| AddMetaData | 0.446 | 0.036 | 0.483 | |
| AllCloseByRegions | 0.342 | 0.010 | 0.351 | |
| AllCoeditedRegions | 0.406 | 0.022 | 0.428 | |
| AnnotateResults | 1.842 | 0.037 | 1.881 | |
| CountSamplesPerGroup | 0.002 | 0.000 | 0.003 | |
| CreateEditingTable | 0.028 | 0.002 | 0.031 | |
| CreateOutputDF | 0.016 | 0.002 | 0.018 | |
| CreateRdrop | 0.009 | 0.002 | 0.010 | |
| FindCorrelatedRegions | 0.011 | 0.002 | 0.012 | |
| GetMinPairwiseCor | 0.004 | 0.001 | 0.005 | |
| GetSitesLocations | 0.079 | 0.003 | 0.083 | |
| MakeModelFormula | 0.001 | 0.001 | 0.001 | |
| MarkCoeditedSites | 0.009 | 0.002 | 0.010 | |
| OrderSitesByLocation | 0.001 | 0.000 | 0.002 | |
| PlotEditingCorrelations | 0.497 | 0.023 | 0.522 | |
| RegionSummaryMethod | 0.039 | 0.004 | 0.043 | |
| SingleCloseByRegion | 0.076 | 0.002 | 0.077 | |
| SingleCoeditedRegion | 0.130 | 0.009 | 0.139 | |
| SitesToRegion | 0.023 | 0.001 | 0.024 | |
| SummarizeAllRegions | 1.201 | 0.035 | 1.240 | |
| SummarizeSingleRegion | 0.078 | 0.002 | 0.081 | |
| TestAssociations | 1.104 | 0.026 | 1.131 | |
| TestSingleRegion | 0.034 | 0.003 | 0.037 | |
| TransformToGR | 0.054 | 0.002 | 0.055 | |