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BioC 2.14: CHECK report for widgetTools on petty

This page was generated on 2014-10-08 08:56:54 -0700 (Wed, 08 Oct 2014).

Package 817/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
widgetTools 1.42.0
Jianhua Zhang
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/widgetTools
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 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: widgetTools
Version: 1.42.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch widgetTools_1.42.0.tar.gz
StartedAt: 2014-10-08 00:36:31 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 00:37:15 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 44.6 seconds
RetCode: 0
Status:  OK 
CheckDir: widgetTools.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch widgetTools_1.42.0.tar.gz
###
##############################################################################
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* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/widgetTools.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘widgetTools/DESCRIPTION’ ... OK
* this is package ‘widgetTools’ version ‘1.42.0’
* 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 ‘widgetTools’ can be installed ... [3s/3s] 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
'library' or 'require' call to ‘methods’ which was already attached by Depends.
  Please remove these calls from your code.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File ‘widgetTools/R/zzz.R’:
  .onLoad has wrong argument list ‘libname, pkgname, where’
  .onLoad calls:
    require("methods", quietly = TRUE)
  .onAttach calls:
    require("Biobase")

Package startup functions should have two arguments with names starting
  with ‘lib’ and ‘pkg’, respectively.
Package startup functions should not change the search path.
See section ‘Good practice’ in '?.onAttach'.

.getChanges: warning in get(wName(pWidgets[[i]]), env =
  wEnv(pWidgets[[i]])): partial argument match of 'env' to 'envir'
.putPW2Env : putOne: warning in assign(wName(pWidget), pWidget, env =
  wEnv(pWidget)): partial argument match of 'env' to 'envir'
updateCheck,widget: warning in get(PWName, env = wEnv(object)): partial
  argument match of 'env' to 'envir'
updateCheck,widget: warning in assign(wName(tempPW), tempPW, env =
  wEnv(tempPW)): partial argument match of 'env' to 'envir'
updateList,widget: warning in get(PWName, env = wEnv(object)): partial
  argument match of 'env' to 'envir'
updateList,widget: warning in assign(wName(tempPW), tempPW, env =
  wEnv(tempPW)): partial argument match of 'env' to 'envir'
updateRadio,widget: warning in get(PWName, env = wEnv(object)): partial
  argument match of 'env' to 'envir'
updateRadio,widget: warning in assign(wName(tempPW), tempPW, env =
  wEnv(tempPW)): partial argument match of 'env' to 'envir'
updateText,widget: warning in get(PWName, env = wEnv(object)): partial
  argument match of 'env' to 'envir'
updateText,widget: warning in assign(wName(tempPW), tempPW, env =
  wEnv(tempPW)): partial argument match of 'env' to 'envir'
updateList,widget: no visible binding for global variable ‘bName’
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [1s/1s] 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

NOTE: There were 2 notes.
See
  ‘/Users/biocbuild/bbs-2.14-bioc/meat/widgetTools.Rcheck/00check.log’
for details.

widgetTools.Rcheck/00install.out:

* installing *source* package ‘widgetTools’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (widgetTools)

widgetTools.Rcheck/widgetTools-Ex.timings:

nameusersystemelapsed
basicPW-class0.0130.0020.013
button0.0300.0030.033
dropdownList0.0020.0010.002
makeViewer0.0010.0000.001
oneVScrList0.0010.0000.002
safeFileOpen0.0030.0020.004
tooltip0.0010.0000.002
widget-class0.0290.0030.031
widgetView-class0.0020.0000.002
writeText0.0020.0000.003