Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-09-12 11:40 -0400 (Thu, 12 Sep 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4713 |
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4444 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4450 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4483 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4430 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4428 |
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 |
Package 1386/2258 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
nearBynding 1.15.0 (landing page) Veronica Busa
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | ||||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the nearBynding package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/nearBynding.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: nearBynding |
Version: 1.15.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:nearBynding.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings nearBynding_1.15.0.tar.gz |
StartedAt: 2024-09-12 01:06:58 -0400 (Thu, 12 Sep 2024) |
EndedAt: 2024-09-12 01:12:10 -0400 (Thu, 12 Sep 2024) |
EllapsedTime: 311.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: nearBynding.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:nearBynding.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings nearBynding_1.15.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/nearBynding.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.5 LTS * using session charset: UTF-8 * checking for file ‘nearBynding/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘nearBynding’ version ‘1.15.0’ * 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 ‘nearBynding’ can be installed ... OK * checking installed package size ... NOTE installed size is 7.1Mb sub-directories of 1Mb or more: extdata 6.9Mb * 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 code 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 ... 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 processCapRout 16.31 0.499 16.81 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.20-bioc/meat/nearBynding.Rcheck/00check.log’ for details.
nearBynding.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL nearBynding ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘nearBynding’ ... ** 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 (nearBynding)
nearBynding.Rcheck/nearBynding-Ex.timings
name | user | system | elapsed | |
CleanBAMtoBG | 0.031 | 0.004 | 0.037 | |
CleanBEDtoBG | 0.007 | 0.001 | 0.007 | |
ExtractTranscriptomeSequence | 0.000 | 0.000 | 0.001 | |
GenomeMappingToChainFile | 4.108 | 0.259 | 4.368 | |
assessGrouping | 1.007 | 0.100 | 1.106 | |
bindingContextDistance | 0.110 | 0.013 | 0.126 | |
bindingContextDistanceCapR | 0.310 | 0.011 | 0.322 | |
getChainChrSize | 3.042 | 0.068 | 3.110 | |
get_outfiles | 0.007 | 0.000 | 0.008 | |
liftOverToExomicBG | 3.790 | 0.101 | 3.891 | |
nearBynding-package | 0 | 0 | 0 | |
processCapRout | 16.310 | 0.499 | 16.810 | |
runCapR | 0.001 | 0.002 | 0.002 | |
runStereogene | 0.002 | 0.000 | 0.001 | |
runStereogeneOnCapR | 0.006 | 0.000 | 0.006 | |
symmetryCapR | 0.284 | 0.007 | 0.292 | |
symmetryContext | 0.039 | 0.008 | 0.046 | |
visualizeCapRStereogene | 4.683 | 0.060 | 4.713 | |
visualizeStereogene | 3.933 | 0.016 | 3.921 | |
write_config | 0.000 | 0.000 | 0.001 | |
write_fasta | 0.000 | 0.000 | 0.001 | |