Brian D. Bennett
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/goSTAG |
| Branch: RELEASE_3_7 |
| Last Commit: b9bd7e8 |
| Last Changed Date: 2018-04-30 10:35:45 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:57:40 -0400 (Wed, 17 Oct 2018).
| Package 635/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| goSTAG 1.4.0 Brian D. Bennett
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: goSTAG |
| Version: 1.4.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:goSTAG.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings goSTAG_1.4.0.tar.gz |
| StartedAt: 2018-10-16 21:47:52 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 21:53:52 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 359.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: goSTAG.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:goSTAG.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings goSTAG_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/goSTAG.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘goSTAG/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘goSTAG’ version ‘1.4.0’
* 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 ‘goSTAG’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
annotateClusters 45.940 1.589 47.957
goSTAG-package 44.995 1.420 46.854
plotHeatmap 43.662 1.402 45.478
groupClusters 42.471 1.350 44.058
performGOEnrichment 40.335 1.320 41.995
performHierarchicalClustering 40.120 1.328 41.755
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* 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
goSTAG.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL goSTAG ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘goSTAG’ ... ** R ** data *** moving datasets to lazyload DB ** 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 * DONE (goSTAG)
goSTAG.Rcheck/tests/testthat.Rout
R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(goSTAG)
>
> test_check("goSTAG")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 0 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
3.877 0.238 4.168
goSTAG.Rcheck/goSTAG-Ex.timings
| name | user | system | elapsed | |
| annotateClusters | 45.940 | 1.589 | 47.957 | |
| goSTAG-package | 44.995 | 1.420 | 46.854 | |
| goSTAG_example_gene_lists | 0.002 | 0.000 | 0.003 | |
| goSTAG_go_genes_human | 0.086 | 0.007 | 0.101 | |
| goSTAG_go_genes_mouse | 0.078 | 0.005 | 0.084 | |
| goSTAG_go_genes_rat | 0.076 | 0.002 | 0.079 | |
| groupClusters | 42.471 | 1.350 | 44.058 | |
| loadGOTerms | 0.259 | 0.018 | 0.279 | |
| loadGeneLists | 0.007 | 0.002 | 0.008 | |
| performGOEnrichment | 40.335 | 1.320 | 41.995 | |
| performHierarchicalClustering | 40.120 | 1.328 | 41.755 | |
| plotHeatmap | 43.662 | 1.402 | 45.478 | |
| rat_cancer_therapeutics_gene_lists | 0.005 | 0.001 | 0.006 | |