BioC 3.1: CHECK report for MergeMaid on morelia
This page was generated on 2015-10-09 09:37:56 -0700 (Fri, 09 Oct 2015).
MergeMaid 2.40.0 Xiaogang Zhong
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/MergeMaid | Last Changed Rev: 102591 / Revision: 109384 | Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | | |
moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK | OK | |
petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK | OK | |
morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | [ OK ] | OK | |
Summary
Package: MergeMaid |
Version: 2.40.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MergeMaid_2.40.0.tar.gz |
StartedAt: 2015-10-09 03:40:31 -0700 (Fri, 09 Oct 2015) |
EndedAt: 2015-10-09 03:41:48 -0700 (Fri, 09 Oct 2015) |
EllapsedTime: 77.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MergeMaid.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 MergeMaid_2.40.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.1-bioc/meat/MergeMaid.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MergeMaid/DESCRIPTION’ ... OK
* this is package ‘MergeMaid’ version ‘2.40.0’
* 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 ‘MergeMaid’ can be installed ... [2s/2s] 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
Packages in Depends field not imported from:
‘MASS’ ‘methods’ ‘survival’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.fdr.mergeCor: no visible global function definition for ‘.getnull’
.mergemodel: no visible global function definition for ‘coxph’
maxintcor: no visible global function definition for ‘ginv’
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [45s/45s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
intcorDens 18.450 0.929 19.390
class.mergeExpressionSet 8.273 0.477 8.755
* 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: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.1-bioc/meat/MergeMaid.Rcheck/00check.log’
for details.
MergeMaid.Rcheck/00install.out:
* installing *source* package ‘MergeMaid’ ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘plot’ from package ‘graphics’ in package ‘MergeMaid’
Creating a generic function for ‘hist’ from package ‘graphics’ in package ‘MergeMaid’
Creating a generic function for ‘summary’ from package ‘base’ in package ‘MergeMaid’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (MergeMaid)
MergeMaid.Rcheck/MergeMaid-Ex.timings:
name | user | system | elapsed
|
class.mergeCoeff | 1.388 | 0.066 | 1.456 |
|
class.mergeCor | 3.923 | 0.308 | 4.237 |
|
class.mergeExpressionSet | 8.273 | 0.477 | 8.755 |
|
intCor | 4.041 | 0.290 | 4.333 |
|
intcorDens | 18.450 | 0.929 | 19.390 |
|
intersection | 0.219 | 0.004 | 0.223 |
|
mergeExprs | 3.848 | 0.156 | 4.012 |
|
modelOutcome | 1.789 | 0.072 | 1.866 |
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