iFlow 2.3.1
Kyongryun Lee
| Snapshot Date: 2010-10-11 23:20:12 -0700 (Mon, 11 Oct 2010) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/iFlow | | Last Changed Rev: 47414 / Revision: 50114 | | Last Changed Date: 2010-06-11 13:53:42 -0700 (Fri, 11 Jun 2010) |
| lamb2 | Linux (openSUSE 11.2) / x86_64 | OK | [ ERROR ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | ERROR | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | N O T S U P P O R T E D |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | ERROR | OK |
* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/iFlow.Rcheck’
* using R version 2.12.0 RC (2010-10-07 r53227)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘iFlow/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iFlow’ version ‘2.3.1’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘iFlow’ can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated 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
ask.dialog: no visible binding for global variable ‘selected.channels’
ask.graphics.details: no visible binding for global variable
‘selected.channels’
openGraphics: no visible binding for global variable ‘value.y’
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Functions/methods with usage in documentation object 'GlobalLists' but not in code:
$
Codoc mismatches from documentation object 'GlobalLists':
iget
Code: function(name)
Docs: function(workflow.list)
Argument names in code not in docs:
name
Argument names in docs not in code:
workflow.list
Mismatches in argument names:
Position: 1 Code: name Docs: workflow.list
* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'GlobalLists'
workflow.list .guiEnv Gate.list
Objects in \usage without \alias in documentation object 'GlobalLists':
iget $
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... ERROR
Running examples in ‘iFlow-Ex.R’ failed
The error most likely occurred in:
> assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: GlobalLists
> ### Title: GlobalLists
> ### Aliases: GlobalLists
>
> ### ** Examples
>
> wf.list <- iget("workflow.list")
Error: could not find function "iget"
Execution halted
* installing *source* package ‘iFlow’ ...
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.1-00)
Attaching package: 'flowCore'
The following object(s) are masked from 'package:stats':
alias, filter
Loading required package: lattice
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: fda
Loading required package: splines
Loading required package: zoo
Loading required package: mvoutlier
Loading required package: cluster
Xlib: extension "RANDR" missing on display ":1410.0".
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (iFlow)