Zachary Skidmore
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/GenVisR |
| Branch: RELEASE_3_9 |
| Last Commit: 6702c8f |
| Last Changed Date: 2019-08-16 14:32:08 -0400 (Fri, 16 Aug 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:08:09 -0400 (Wed, 16 Oct 2019).
| Package 667/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| GenVisR 1.16.1 Zachary Skidmore
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: GenVisR |
| Version: 1.16.1 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:GenVisR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings GenVisR_1.16.1.tar.gz |
| StartedAt: 2019-10-16 01:58:36 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 02:08:59 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 623.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: GenVisR.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:GenVisR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings GenVisR_1.16.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/GenVisR.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘GenVisR/DESCRIPTION’ ... OK
* this is package ‘GenVisR’ version ‘1.16.1’
* 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 ‘GenVisR’ 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 ... NOTE
Namespace in Imports field not imported from: ‘reshape2’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
setTierTwo,data.table : a: no visible binding for global variable ‘tmp’
toLolliplot,GMS: no visible binding for global variable ‘missingINdex’
Undefined global functions or variables:
missingINdex tmp
* 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
Lolliplot-class 52.209 0.568 43.543
genCov 9.772 0.072 9.847
cnFreq 5.925 0.004 5.935
lolliplot 3.091 0.020 10.757
* 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: 2 NOTEs
See
‘/home/biocbuild/bbs-3.9-bioc/meat/GenVisR.Rcheck/00check.log’
for details.
GenVisR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL GenVisR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘GenVisR’ ... ** using staged installation ** 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 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 (GenVisR)
GenVisR.Rcheck/tests/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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(GenVisR)
>
> test_check("GenVisR")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 651 | SKIPPED: 54 | WARNINGS: 11 | FAILED: 0 ]
>
> proc.time()
user system elapsed
421.542 2.893 255.966
GenVisR.Rcheck/GenVisR-Ex.timings
| name | user | system | elapsed | |
| Lolliplot-class | 52.209 | 0.568 | 43.543 | |
| TvTi | 2.178 | 0.084 | 2.262 | |
| Waterfall-class | 4.745 | 0.008 | 2.040 | |
| cnFreq | 5.925 | 0.004 | 5.935 | |
| cnSpec | 2.572 | 0.000 | 2.572 | |
| cnView | 0.886 | 0.004 | 0.889 | |
| compIdent | 2.119 | 0.024 | 2.144 | |
| covBars | 0.928 | 0.004 | 0.934 | |
| genCov | 9.772 | 0.072 | 9.847 | |
| geneViz | 4.078 | 0.019 | 4.114 | |
| ideoView | 0.623 | 0.000 | 0.629 | |
| lohSpec | 4.217 | 0.000 | 4.244 | |
| lohView | 0.915 | 0.000 | 0.926 | |
| lolliplot | 3.091 | 0.020 | 10.757 | |
| waterfall | 1.439 | 0.004 | 1.461 | |