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This page was generated on 2021-10-15 15:05:59 -0400 (Fri, 15 Oct 2021).
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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? 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 258/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cellbaseR 1.16.0 (landing page) Mohammed OE Abdallah
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK |  | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: cellbaseR |
| Version: 1.16.0 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:cellbaseR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings cellbaseR_1.16.0.tar.gz |
| StartedAt: 2021-10-14 20:44:54 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 20:51:51 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 416.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: cellbaseR.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:cellbaseR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings cellbaseR_1.16.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/cellbaseR.Rcheck'
* using R version 4.1.1 (2021-08-10)
* 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 '1.16.0'
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
AnnotateVcf-CellBaseR-method 5.96 1.04 47.97
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
AnnotateVcf-CellBaseR-method 5.66 1.08 48.96
* 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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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/cellbaseR_1.16.0.tar.gz && rm -rf cellbaseR.buildbin-libdir && mkdir cellbaseR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cellbaseR.buildbin-libdir cellbaseR_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL cellbaseR_1.16.0.zip && rm cellbaseR_1.16.0.tar.gz cellbaseR_1.16.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
38 737k 38 287k 0 0 950k 0 --:--:-- --:--:-- --:--:-- 950k
100 737k 100 737k 0 0 1397k 0 --:--:-- --:--:-- --:--:-- 1397k
install for i386
* 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: C:/Users/biocbuild/bbs-3.13-bioc/meat/cellbaseR.buildbin-libdir/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
install for x64
* installing *source* package 'cellbaseR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'cellbaseR' as cellbaseR_1.16.0.zip
* DONE (cellbaseR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'cellbaseR' successfully unpacked and MD5 sums checked
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cellbaseR.Rcheck/examples_i386/cellbaseR-Ex.timings
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cellbaseR.Rcheck/examples_x64/cellbaseR-Ex.timings
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