BioC 3.6: CHECK report for methylInheritance on malbec1
This page was generated on 2017-08-16 13:25:42 -0400 (Wed, 16 Aug 2017).
methylInheritance 1.1.0 Astrid Deschenes
Snapshot Date: 2017-08-15 17:18:21 -0400 (Tue, 15 Aug 2017) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/methylInheritance | Last Changed Rev: 129129 / Revision: 131943 | Last Changed Date: 2017-04-24 15:50:57 -0400 (Mon, 24 Apr 2017) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | |  |
tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK |  |
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK |  |
Summary
Package: methylInheritance |
Version: 1.1.0 |
Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings methylInheritance_1.1.0.tar.gz |
StartedAt: 2017-08-16 00:39:32 -0400 (Wed, 16 Aug 2017) |
EndedAt: 2017-08-16 00:46:47 -0400 (Wed, 16 Aug 2017) |
EllapsedTime: 435.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: methylInheritance.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings methylInheritance_1.1.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/methylInheritance.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘methylInheritance/DESCRIPTION’ ... OK
* this is package ‘methylInheritance’ version ‘1.1.0’
* package encoding: UTF-8
* 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 ‘methylInheritance’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
runObservation 55.204 0.032 55.265
runOnePermutationOnAllGenerations 12.152 0.012 11.996
samplesForTransgenerationalAnalysis 11.304 0.192 33.536
demoForTransgenerationalAnalysis 6.580 0.052 6.478
runPermutation 4.132 0.244 80.442
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.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: OK
methylInheritance.Rcheck/00install.out:
* installing *source* package ‘methylInheritance’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (methylInheritance)
methylInheritance.Rcheck/methylInheritance-Ex.timings:
name | user | system | elapsed
|
createDataStructure | 0.156 | 0.000 | 0.157 |
|
createOutputDir | 0.000 | 0.000 | 0.001 |
|
demoForTransgenerationalAnalysis | 6.580 | 0.052 | 6.478 |
|
extractInfo | 0.34 | 0.00 | 0.34 |
|
getGRangesFromMethylDiff | 0.084 | 0.000 | 0.084 |
|
interGeneration | 0.684 | 0.004 | 0.687 |
|
isInterGenerationResults | 0.004 | 0.000 | 0.001 |
|
loadAllRDSResults | 0.252 | 0.004 | 0.259 |
|
mergePermutationAndObservation | 0.004 | 0.000 | 0.004 |
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methylInheritanceAllResults | 0.032 | 0.000 | 0.033 |
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methylInheritanceResults | 0.052 | 0.000 | 0.052 |
|
plotGraph | 1.552 | 0.000 | 1.554 |
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readInterGenerationResults | 0.092 | 0.000 | 0.091 |
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runObservation | 55.204 | 0.032 | 55.265 |
|
runOnePermutationOnAllGenerations | 12.152 | 0.012 | 11.996 |
|
runPermutation | 4.132 | 0.244 | 80.442 |
|
samplesForTransgenerationalAnalysis | 11.304 | 0.192 | 33.536 |
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saveInterGenerationResults | 0.672 | 0.028 | 0.700 |
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validateExtractInfo | 0.004 | 0.000 | 0.003 |
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validateMergePermutationAndObservation | 0.000 | 0.000 | 0.001 |
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validateRunObservation | 0.100 | 0.012 | 0.110 |
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validateRunPermutation | 0.108 | 0.004 | 0.110 |
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