Back to Multiple platform build/check report for BioC 3.9
[A]BCDEFGHIJKLMNOPQRSTUVWXYZ

CHECK report for ASpli on merida2

This page was generated on 2019-04-09 13:33:43 -0400 (Tue, 09 Apr 2019).

Package 85/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ASpli 1.9.1
Estefania Mancini
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/ASpli
Branch: master
Last Commit: 8c8d62f
Last Changed Date: 2019-01-04 13:13:06 -0400 (Fri, 04 Jan 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK 

Summary

Package: ASpli
Version: 1.9.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ASpli_1.9.1.tar.gz
StartedAt: 2019-04-08 23:18:10 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 23:24:47 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 396.6 seconds
RetCode: 0
Status:  OK 
CheckDir: ASpli.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ASpli_1.9.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/ASpli.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ASpli/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ASpli’ version ‘1.9.1’
* 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 ‘ASpli’ 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                             user system elapsed
plotGenomicRegions         16.951  0.153  17.273
plotBins                   10.493  0.040  10.623
mergeBinDUAS-method         8.399  0.030   8.506
ASpli-package               7.826  0.247   8.126
AsDiscover-methods          5.961  0.124   6.118
subset-methods              5.851  0.021   5.935
junctionDUreport            5.080  0.019   5.128
containsJunctions-function  5.075  0.018   5.154
rds                         5.026  0.022   5.105
filterDU-method             5.012  0.018   5.061
* 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

ASpli.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL ASpli
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘ASpli’ ...
** R
** 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 (ASpli)

Tests output


Example timings

ASpli.Rcheck/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package7.8260.2478.126
AsDiscover-methods5.9610.1246.118
DUreport4.6180.0234.676
DUreportBinSplice-method4.8330.0274.981
acc_AS0.0240.0020.027
acc_DU0.0080.0010.010
acc_counts0.0180.0020.021
acc_features0.2640.0010.265
binGenome2.7080.0122.751
containsJunctions-function5.0750.0185.154
example_data0.6310.0130.652
filterDU-method5.0120.0185.061
getConditions-function0.0060.0000.006
junctionDUreport5.0800.0195.128
loadBAM0.1730.0030.178
mergeBinDUAS-method8.3990.0308.506
plotBins10.493 0.04010.623
plotGenomicRegions16.951 0.15317.273
rds5.0260.0225.105
readCounts4.8940.0244.963
subset-methods5.8510.0215.935