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CHECK report for SVAPLSseq on malbec1

This page was generated on 2019-04-16 11:52:17 -0400 (Tue, 16 Apr 2019).

Package 1530/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SVAPLSseq 1.8.1
Sutirtha Chakraborty
Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019)
URL: https://git.bioconductor.org/packages/SVAPLSseq
Branch: RELEASE_3_8
Last Commit: afebc26
Last Changed Date: 2019-01-04 13:52:08 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SVAPLSseq
Version: 1.8.1
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:SVAPLSseq.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings SVAPLSseq_1.8.1.tar.gz
StartedAt: 2019-04-16 03:20:09 -0400 (Tue, 16 Apr 2019)
EndedAt: 2019-04-16 03:22:28 -0400 (Tue, 16 Apr 2019)
EllapsedTime: 139.2 seconds
RetCode: 0
Status:  OK 
CheckDir: SVAPLSseq.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:SVAPLSseq.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings SVAPLSseq_1.8.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/SVAPLSseq.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVAPLSseq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SVAPLSseq’ version ‘1.8.1’
* 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 ‘SVAPLSseq’ 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
* 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


Installation output

SVAPLSseq.Rcheck/00install.out

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL SVAPLSseq
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘SVAPLSseq’ ...
** R
** data
** 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 (SVAPLSseq)

Tests output


Example timings

SVAPLSseq.Rcheck/SVAPLSseq-Ex.timings

nameusersystemelapsed
SVAPLSseq-package1.8360.0401.877
prop.vars1.9240.0161.944
pvs.adj1.3240.0121.338
pvs.unadj1.8680.0041.875
sig.features1.7760.0001.774
surr1.4040.0001.405
svplsSurr1.6120.0001.644
svplsTest2.3480.0042.371