Stephanie M. Gogarten
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/GENESIS |
| Branch: RELEASE_3_7 |
| Last Commit: 1cd5d4e |
| Last Changed Date: 2018-08-01 17:02:27 -0400 (Wed, 01 Aug 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:54:27 -0400 (Wed, 17 Oct 2018).
| Package 578/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| GENESIS 2.10.1 Stephanie M. Gogarten
| 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: GENESIS |
| Version: 2.10.1 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GENESIS.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GENESIS_2.10.1.tar.gz |
| StartedAt: 2018-10-16 21:36:43 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 21:42:48 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 364.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: GENESIS.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GENESIS.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GENESIS_2.10.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/GENESIS.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 ‘GENESIS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GENESIS’ version ‘2.10.1’
* 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 ‘GENESIS’ 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
Unexported object imported by a ':::' call: ‘survey:::saddle’
See the note in ?`:::` about the use of this operator.
* 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
admixMapMM 11.784 0.548 12.493
assocTestMM 11.142 0.540 11.762
fitNullModel 10.673 0.447 11.219
pcrelate 10.452 0.439 10.980
varCompCI 10.190 0.399 10.671
fitNullMM 9.387 0.465 9.935
* 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: 1 NOTE
See
‘/Users/biocbuild/bbs-3.7-bioc/meat/GENESIS.Rcheck/00check.log’
for details.
GENESIS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL GENESIS ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘GENESIS’ ... ** R ** data ** 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 (GENESIS)
GENESIS.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(GENESIS)
>
> test_check("GENESIS")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 256 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
120.843 4.276 126.218
GENESIS.Rcheck/GENESIS-Ex.timings
| name | user | system | elapsed | |
| admixMapMM | 11.784 | 0.548 | 12.493 | |
| assocTestAggregate | 2.805 | 0.077 | 2.919 | |
| assocTestMM | 11.142 | 0.540 | 11.762 | |
| assocTestSeq | 0.005 | 0.001 | 0.006 | |
| assocTestSeqWindow | 0.006 | 0.001 | 0.006 | |
| assocTestSingle | 1.873 | 0.241 | 2.141 | |
| fitNullMM | 9.387 | 0.465 | 9.935 | |
| fitNullModel | 10.673 | 0.447 | 11.219 | |
| king2mat | 0.314 | 0.012 | 0.329 | |
| pcair | 0.682 | 0.116 | 0.802 | |
| pcairPartition | 0.090 | 0.002 | 0.093 | |
| pcrelate | 10.452 | 0.439 | 10.980 | |
| plot.pcair | 0.828 | 0.159 | 0.997 | |
| varCompCI | 10.190 | 0.399 | 10.671 | |