Mohammed OE Abdallah
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/cellbaseR |
| Branch: RELEASE_3_10 |
| Last Commit: 3cf038b |
| Last Changed Date: 2019-10-29 13:10:25 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:12:40 -0400 (Wed, 15 Apr 2020).
| Package 239/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| cellbaseR 1.10.0 Mohammed OE Abdallah
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | ERROR | OK |
| Package: cellbaseR |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:cellbaseR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings cellbaseR_1.10.0.tar.gz |
| StartedAt: 2020-04-15 04:47:26 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 04:49:59 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 152.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: cellbaseR.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:cellbaseR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings cellbaseR_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/cellbaseR.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (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 ‘1.10.0’
* 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 for sufficient/correct file permissions ... 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 or elapsed time > 5s
user system elapsed
AnnotateVcf-CellBaseR-method 4.840 0.82 8.572
getTf-CellBaseR-method 0.064 0.00 6.149
* 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: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL cellbaseR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-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 | 4.840 | 0.820 | 8.572 | |
| CellBaseParam | 0.004 | 0.000 | 0.002 | |
| CellBaseR | 0.044 | 0.000 | 0.335 | |
| createGeneModel | 0.192 | 0.012 | 0.828 | |
| getCaddScores | 0.056 | 0.000 | 0.506 | |
| getCellBase-CellBaseR-method | 0.064 | 0.000 | 0.529 | |
| getCellBaseResourceHelp | 0.240 | 0.016 | 0.808 | |
| getChromosomeInfo-CellBaseR-method | 0.060 | 0.004 | 0.510 | |
| getClinical-CellBaseR-method | 0.700 | 0.012 | 1.554 | |
| getClinicalByRegion | 1.528 | 0.024 | 3.456 | |
| getConservationByRegion | 0.088 | 0.000 | 0.837 | |
| getGene-CellBaseR-method | 0.136 | 0.000 | 0.854 | |
| getGeneInfo | 0.068 | 0.000 | 0.553 | |
| getMeta-CellBaseR-method | 0.072 | 0.000 | 0.522 | |
| getProtein-CellBaseR-method | 0.160 | 0.000 | 0.704 | |
| getProteinInfo | 0.152 | 0.000 | 0.720 | |
| getRegion-CellBaseR-method | 0.136 | 0.000 | 0.799 | |
| getRegulatoryByRegion | 0.172 | 0.000 | 1.014 | |
| getSnp-CellBaseR-method | 0.088 | 0.000 | 0.554 | |
| getSnpByGene | 0.092 | 0.000 | 0.588 | |
| getTf-CellBaseR-method | 0.064 | 0.000 | 6.149 | |
| getTfbsByRegion | 0.084 | 0.000 | 0.591 | |
| getTranscript-CellBaseR-method | 0.060 | 0.004 | 0.544 | |
| getTranscriptByGene | 0.060 | 0.000 | 0.538 | |
| getVariant-CellBaseR-method | 0.156 | 0.004 | 0.788 | |
| getVariantAnnotation | 0.176 | 0.000 | 0.854 | |
| getXref-CellBaseR-method | 0.064 | 0.000 | 0.513 | |