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BioC 3.5: CHECK report for MODA on oaxaca

This page was generated on 2017-03-04 16:52:58 -0500 (Sat, 04 Mar 2017).

Package 812/1339HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MODA 1.1.2
Dong Li
Snapshot Date: 2017-03-03 17:15:47 -0500 (Fri, 03 Mar 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MODA
Last Changed Rev: 126313 / Revision: 127142
Last Changed Date: 2017-01-30 07:48:34 -0500 (Mon, 30 Jan 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK [ OK ] OK 

Summary

Package: MODA
Version: 1.1.2
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MODA_1.1.2.tar.gz
StartedAt: 2017-03-04 05:59:48 -0800 (Sat, 04 Mar 2017)
EndedAt: 2017-03-04 06:02:01 -0800 (Sat, 04 Mar 2017)
EllapsedTime: 132.4 seconds
RetCode: 0
Status:  OK 
CheckDir: MODA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MODA_1.1.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/MODA.Rcheck’
* using R Under development (unstable) (2017-02-15 r72177)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MODA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MODA’ version ‘1.1.2’
* 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 ‘MODA’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
MIcondition: no visible binding for global variable ‘pwd’
WeightedModulePartitionSpectral: no visible binding for global variable
  ‘indicator’
Undefined global functions or variables:
  indicator pwd
* 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’ ... NOTE
Package has no Sweave vignette sources and no VignetteBuilder field.
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.5-bioc/meat/MODA.Rcheck/00check.log’
for details.


MODA.Rcheck/00install.out:

* installing *source* package ‘MODA’ ...
** 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 (MODA)

MODA.Rcheck/MODA-Ex.timings:

nameusersystemelapsed
CompareAllNets2.7060.0782.814
PartitionDensity0.0850.0030.087
PartitionModularity0.0790.0010.080
WeightedModulePartitionAmoutain2.1030.1372.240
WeightedModulePartitionHierarchical0.5210.0170.540
WeightedModulePartitionLouvain0.1860.0060.192
WeightedModulePartitionSpectral1.7430.0171.760
comparemodulestwonets0.8230.0440.871
datExpr10.0040.0000.004
datExpr20.0040.0000.004