Mohammed OE Abdallah
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/cellbaseR |
| git_branch: master |
| git_last_commit: 6e25a74 |
| git_last_commit_date: 2021-10-26 12:35:00 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:07:08 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 cellbaseR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cellbaseR.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 262/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cellbaseR 1.19.0 (landing page) Mohammed OE Abdallah
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: cellbaseR |
| Version: 1.19.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellbaseR.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings cellbaseR_1.19.0.tar.gz |
| StartedAt: 2022-03-17 18:39:36 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 18:42:20 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 164.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: cellbaseR.Rcheck |
| Warnings: 0 |
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### Running command:
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### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellbaseR.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings cellbaseR_1.19.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/cellbaseR.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'cellbaseR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cellbaseR' version '1.19.0'
* 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 whether package 'cellbaseR' 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
AnnotateVcf-CellBaseR-method 3.98 0.5 40.11
* 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
cellbaseR.Rcheck/00install.out
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### Running command:
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### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL cellbaseR
###
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'cellbaseR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'cellbaseR'
finding HTML links ... done
AnnotateVcf-CellBaseR-method html
CellBaseParam-class html
CellBaseParam html
CellBaseR-class html
CellBaseR html
cellbaseR-package html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-cellbaseR/00new/cellbaseR/help/cellbaseR.html
createGeneModel html
getCaddScores html
getCellBase-CellBaseR-method html
getCellBaseResourceHelp html
getChromosomeInfo-CellBaseR-method html
getClinical-CellBaseR-method html
getClinicalByGene html
getClinicalByRegion html
getConservationByRegion html
getGene-CellBaseR-method html
getGeneInfo html
getMeta-CellBaseR-method html
getProtein-CellBaseR-method html
getProteinInfo html
getRegion-CellBaseR-method html
getRegulatoryByRegion html
getSnp-CellBaseR-method html
getSnpByGene html
getTf-CellBaseR-method html
getTfbsByRegion html
getTranscript-CellBaseR-method html
getTranscriptByGene html
getVariant-CellBaseR-method html
getVariantAnnotation html
getXref-CellBaseR-method html
** 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 (cellbaseR)
Making 'packages.html' ... done
cellbaseR.Rcheck/cellbaseR-Ex.timings
| name | user | system | elapsed | |
| AnnotateVcf-CellBaseR-method | 3.98 | 0.50 | 40.11 | |
| CellBaseParam | 0 | 0 | 0 | |
| CellBaseR | 0.08 | 0.02 | 0.42 | |
| createGeneModel | 0.23 | 0.00 | 0.95 | |
| getCaddScores | 0.11 | 0.00 | 0.66 | |
| getCellBase-CellBaseR-method | 0.09 | 0.00 | 0.67 | |
| getCellBaseResourceHelp | 0.22 | 0.01 | 0.91 | |
| getChromosomeInfo-CellBaseR-method | 0.08 | 0.00 | 0.65 | |
| getClinical-CellBaseR-method | 0.86 | 0.09 | 1.88 | |
| getClinicalByRegion | 1.97 | 0.10 | 3.37 | |
| getConservationByRegion | 0.17 | 0.00 | 1.00 | |
| getGene-CellBaseR-method | 0.16 | 0.00 | 0.88 | |
| getGeneInfo | 0.11 | 0.00 | 0.65 | |
| getMeta-CellBaseR-method | 0.09 | 0.00 | 0.66 | |
| getProtein-CellBaseR-method | 0.13 | 0.02 | 0.79 | |
| getProteinInfo | 0.18 | 0.00 | 0.85 | |
| getRegion-CellBaseR-method | 0.16 | 0.00 | 0.98 | |
| getRegulatoryByRegion | 0.23 | 0.02 | 1.22 | |
| getSnp-CellBaseR-method | 0.10 | 0.00 | 0.66 | |
| getSnpByGene | 0.09 | 0.00 | 0.68 | |
| getTf-CellBaseR-method | 0.13 | 0.00 | 3.46 | |
| getTfbsByRegion | 0.09 | 0.00 | 0.68 | |
| getTranscript-CellBaseR-method | 0.11 | 0.00 | 0.68 | |
| getTranscriptByGene | 0.05 | 0.00 | 0.62 | |
| getVariant-CellBaseR-method | 0.14 | 0.00 | 0.89 | |
| getVariantAnnotation | 0.17 | 0.00 | 0.87 | |
| getXref-CellBaseR-method | 0.10 | 0.00 | 0.66 | |