BioC 3.5: CHECK report for branchpointer on toluca2
This page was generated on 2017-04-23 14:42:48 -0400 (Sun, 23 Apr 2017).
branchpointer 0.99.11 Beth Signal
Snapshot Date: 2017-04-22 17:18:01 -0400 (Sat, 22 Apr 2017) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/branchpointer | Last Changed Rev: 127303 / Revision: 129046 | Last Changed Date: 2017-03-10 20:31:43 -0500 (Fri, 10 Mar 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | |  |
tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK |  |
toluca2 | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | [ OK ] | OK | |
veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK |  |
Summary
Package: branchpointer |
Version: 0.99.11 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings branchpointer_0.99.11.tar.gz |
StartedAt: 2017-04-23 01:09:51 -0400 (Sun, 23 Apr 2017) |
EndedAt: 2017-04-23 01:15:10 -0400 (Sun, 23 Apr 2017) |
EllapsedTime: 319.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: branchpointer.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings branchpointer_0.99.11.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/branchpointer.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘branchpointer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘branchpointer’ version ‘0.99.11’
* 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 ‘branchpointer’ 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 loading without being on the library search path ... 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 R/sysdata.rda ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
makeRegions 17.282 0.046 17.346
plotBranchpointWindow 13.559 0.113 13.694
predictBranchpoints 8.740 0.057 8.803
predictionsToStats 6.744 0.086 6.836
* 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
branchpointer.Rcheck/00install.out:
* installing *source* package ‘branchpointer’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (branchpointer)
branchpointer.Rcheck/branchpointer-Ex.timings:
name | user | system | elapsed
|
getQueryLoc | 2.115 | 0.010 | 2.129 |
|
gtfToExons | 0.869 | 0.046 | 0.914 |
|
makeRegions | 17.282 | 0.046 | 17.346 |
|
plotBranchpointWindow | 13.559 | 0.113 | 13.694 |
|
plotStructure | 0.347 | 0.002 | 0.351 |
|
predictBranchpoints | 8.740 | 0.057 | 8.803 |
|
predictionsToStats | 6.744 | 0.086 | 6.836 |
|
readQueryFile | 0.019 | 0.001 | 0.019 |
|
snpToQuery | 1.934 | 0.011 | 4.027 |
|