| Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:05:27 -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 | ||||
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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? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 274/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cellbaseR 1.22.0 (landing page) Mohammed OE Abdallah
| 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: cellbaseR |
| Version: 1.22.0 |
| Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellbaseR.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings cellbaseR_1.22.0.tar.gz |
| StartedAt: 2023-04-10 23:44:49 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 23:47:30 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 160.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: cellbaseR.Rcheck |
| Warnings: 0 |
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### Running command:
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### F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellbaseR.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings cellbaseR_1.22.0.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/cellbaseR.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'cellbaseR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cellbaseR' version '1.22.0'
* 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 3.97 0.34 43.31
* 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
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL cellbaseR ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library' * installing *source* package 'cellbaseR' ... ** 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 (cellbaseR)
cellbaseR.Rcheck/cellbaseR-Ex.timings
| name | user | system | elapsed | |
| AnnotateVcf-CellBaseR-method | 3.97 | 0.34 | 43.31 | |
| CellBaseParam | 0 | 0 | 0 | |
| CellBaseR | 0.08 | 0.00 | 0.25 | |
| createGeneModel | 0.15 | 0.00 | 0.43 | |
| getCaddScores | 0.07 | 0.00 | 0.26 | |
| getCellBase-CellBaseR-method | 0.09 | 0.02 | 0.31 | |
| getCellBaseResourceHelp | 0.16 | 0.01 | 1.11 | |
| getChromosomeInfo-CellBaseR-method | 0.11 | 0.00 | 0.38 | |
| getClinical-CellBaseR-method | 0.65 | 0.03 | 1.19 | |
| getClinicalByRegion | 1.50 | 0.02 | 2.48 | |
| getConservationByRegion | 0.11 | 0.00 | 0.55 | |
| getGene-CellBaseR-method | 0.16 | 0.00 | 0.42 | |
| getGeneInfo | 0.08 | 0.00 | 0.28 | |
| getMeta-CellBaseR-method | 0.09 | 0.00 | 0.27 | |
| getProtein-CellBaseR-method | 0.11 | 0.00 | 0.32 | |
| getProteinInfo | 0.12 | 0.00 | 0.33 | |
| getRegion-CellBaseR-method | 0.16 | 0.00 | 0.42 | |
| getRegulatoryByRegion | 0.17 | 0.00 | 0.54 | |
| getSnp-CellBaseR-method | 0.08 | 0.00 | 0.28 | |
| getSnpByGene | 0.06 | 0.00 | 0.28 | |
| getTf-CellBaseR-method | 0.05 | 0.00 | 2.40 | |
| getTfbsByRegion | 0.12 | 0.00 | 0.43 | |
| getTranscript-CellBaseR-method | 0.08 | 0.00 | 0.28 | |
| getTranscriptByGene | 0.06 | 0.00 | 0.26 | |
| getVariant-CellBaseR-method | 0.18 | 0.00 | 0.47 | |
| getVariantAnnotation | 0.18 | 0.00 | 0.53 | |
| getXref-CellBaseR-method | 0.08 | 0.00 | 0.27 | |