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BioC 2.13: CHECK report for flowUtils on zin1

This page was generated on 2014-04-05 09:47:24 -0700 (Sat, 05 Apr 2014).

Package 264/750HostnameOS / ArchBUILDCHECKBUILD BIN
flowUtils 1.22.0
Nishant Gopalakrishnan
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/flowUtils
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: flowUtils
Version: 1.22.0
Command: /home/biocbuild/bbs-2.13-bioc/R/bin/R CMD check --no-vignettes --timings flowUtils_1.22.0.tar.gz
StartedAt: 2014-04-05 01:12:24 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 01:13:26 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 61.8 seconds
RetCode: 0
Status:  OK 
CheckDir: flowUtils.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/flowUtils.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowUtils/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowUtils’ version ‘1.22.0’
* 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 ‘flowUtils’ can be installed ... [6s/6s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘flowCore’
A package should be listed in only one of these fields.
* 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
Unexported objects imported by ‘:::’ calls:
  ‘flowViz:::ell2Polygon’ ‘flowViz:::norm2Polygon’
  See the note in ?`:::` about the use of this operator.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘.fuEnv’
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
testGatingCompliance: warning in defineTestSuite("GatingTestSuite", dir
  = system.file("RUnitScript_Files", package = "flowUtils"),
  testFileRegexp = "^runit.+\\.[rR]$", testFuncRegexp = "^test.+"):
  partial argument match of 'dir' to 'dirs'
testGatingCompliance: warning in printHTMLProtocol(testResult, file =
  paste(file, ".html", sep = "")): partial argument match of 'file' to
  'fileName'
xmlEllipsoidGateNode: no visible global function definition for
  ‘xmlFociNode’
xmlEllipsoidGateNode: no visible global function definition for
  ‘xmlEdgeNode’
* 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 examples ... [3s/3s] OK
* checking PDF version of manual ... OK

NOTE: There were 3 notes.
See
  ‘/home/biocbuild/bbs-2.13-bioc/meat/flowUtils.Rcheck/00check.log’
for details.

flowUtils.Rcheck/00install.out:

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

flowUtils.Rcheck/flowUtils-Ex.timings:

nameusersystemelapsed
read.gatingML0.3080.0080.342
testGatingCompliance0.0040.0000.002