Zachary Skidmore
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/GenVisR |
| Branch: RELEASE_3_10 |
| Last Commit: 827ef01 |
| Last Changed Date: 2019-10-30 10:24:24 -0400 (Wed, 30 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:10:54 -0400 (Wed, 15 Apr 2020).
| Package 693/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| GenVisR 1.18.1 Zachary Skidmore
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: GenVisR |
| Version: 1.18.1 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:GenVisR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings GenVisR_1.18.1.tar.gz |
| StartedAt: 2020-04-15 03:31:41 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 03:42:21 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 640.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: GenVisR.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:GenVisR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings GenVisR_1.18.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/GenVisR.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 ‘GenVisR/DESCRIPTION’ ... OK
* this is package ‘GenVisR’ version ‘1.18.1’
* 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 55.480 0.636 73.376
genCov 8.548 0.068 8.622
lohSpec 5.940 0.000 5.941
cnFreq 5.916 0.012 5.933
cnSpec 5.500 0.000 5.505
lolliplot 3.960 0.032 18.415
* 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-3.10-bioc/meat/GenVisR.Rcheck/00check.log’
for details.
GenVisR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL GenVisR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-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 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 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
434.832 3.004 224.680
GenVisR.Rcheck/GenVisR-Ex.timings
| name | user | system | elapsed | |
| Lolliplot-class | 55.480 | 0.636 | 73.376 | |
| TvTi | 1.708 | 0.004 | 1.714 | |
| Waterfall-class | 3.376 | 0.008 | 1.184 | |
| cnFreq | 5.916 | 0.012 | 5.933 | |
| cnSpec | 5.500 | 0.000 | 5.505 | |
| cnView | 0.740 | 0.000 | 0.741 | |
| compIdent | 1.816 | 0.020 | 1.836 | |
| covBars | 0.680 | 0.000 | 0.682 | |
| genCov | 8.548 | 0.068 | 8.622 | |
| geneViz | 3.232 | 0.020 | 3.258 | |
| ideoView | 0.512 | 0.000 | 0.511 | |
| lohSpec | 5.940 | 0.000 | 5.941 | |
| lohView | 1.224 | 0.000 | 1.229 | |
| lolliplot | 3.960 | 0.032 | 18.415 | |
| waterfall | 1.608 | 0.036 | 1.683 | |