| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:40 -0000 (Tue, 06 Jun 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
| 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: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 1713/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rnaEditr 1.11.0 (landing page) Lanyu Zhang
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | |||||||||
| Package: rnaEditr |
| Version: 1.11.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings rnaEditr_1.11.0.tar.gz |
| StartedAt: 2023-06-06 05:31:28 -0000 (Tue, 06 Jun 2023) |
| EndedAt: 2023-06-06 05:37:48 -0000 (Tue, 06 Jun 2023) |
| EllapsedTime: 380.5 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: rnaEditr.Rcheck |
| Warnings: 1 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:rnaEditr.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings rnaEditr_1.11.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/rnaEditr.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘rnaEditr/DESCRIPTION’ ... OK
* this is package ‘rnaEditr’ version ‘1.11.0’
* 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 loading without being on the library search path ... 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 ... WARNING
checkRd: (7) TestSingleRegion.Rd:38: Invalid URL: "https://www.jstor.org/stable/2336755"
* 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 ...
‘introduction_to_rnaEditr.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING
See
‘/home/biocbuild/bbs-3.18-bioc/meat/rnaEditr.Rcheck/00check.log’
for details.
rnaEditr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL rnaEditr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-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 4.3.0 (2023-04-21) -- "Already Tomorrow"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (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")
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[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
>
> proc.time()
user system elapsed
24.700 0.792 25.533
rnaEditr.Rcheck/rnaEditr-Ex.timings
| name | user | system | elapsed | |
| AddMetaData | 1.642 | 0.072 | 1.719 | |
| AllCloseByRegions | 0.485 | 0.012 | 0.499 | |
| AllCoeditedRegions | 0.789 | 0.072 | 0.863 | |
| AnnotateResults | 3.068 | 0.104 | 3.179 | |
| CountSamplesPerGroup | 0.003 | 0.000 | 0.002 | |
| CreateEditingTable | 0.039 | 0.000 | 0.038 | |
| CreateOutputDF | 0.027 | 0.000 | 0.027 | |
| CreateRdrop | 0.013 | 0.004 | 0.017 | |
| FindCorrelatedRegions | 0.02 | 0.00 | 0.02 | |
| GetMinPairwiseCor | 0.006 | 0.000 | 0.006 | |
| GetSitesLocations | 0.098 | 0.004 | 0.102 | |
| MakeModelFormula | 0.000 | 0.000 | 0.001 | |
| MarkCoeditedSites | 0.010 | 0.008 | 0.018 | |
| OrderSitesByLocation | 0.002 | 0.000 | 0.002 | |
| PlotEditingCorrelations | 0.881 | 0.063 | 0.947 | |
| RegionSummaryMethod | 0.057 | 0.004 | 0.060 | |
| SingleCloseByRegion | 0.119 | 0.000 | 0.119 | |
| SingleCoeditedRegion | 0.276 | 0.000 | 0.276 | |
| SitesToRegion | 0.041 | 0.000 | 0.040 | |
| SummarizeAllRegions | 1.969 | 0.008 | 1.981 | |
| SummarizeSingleRegion | 0.122 | 0.000 | 0.122 | |
| TestAssociations | 2.010 | 0.012 | 2.026 | |
| TestSingleRegion | 0.050 | 0.000 | 0.051 | |
| TransformToGR | 0.075 | 0.000 | 0.075 | |