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Package 221/260HostnameOS / ArchBUILDCHECKBUILD BIN
SBMLR 1.34.0
Tomas Radivoyevitch
Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/SBMLR
Last Changed Rev: 31430 / Revision: 34573
Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  ERROR 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  ERROR  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK [ ERROR ] OK 
Package: SBMLR
Version: 1.34.0
Command: /Library/Frameworks/R.framework/Versions/2.7/Resources/bin/R CMD check SBMLR_1.34.0.tar.gz
StartedAt: 2008-10-16 06:17:22 -0700 (Thu, 16 Oct 2008)
EndedAt: 2008-10-16 06:17:55 -0700 (Thu, 16 Oct 2008)
EllapsedTime: 33.0 seconds
RetCode: 1
Status: ERROR
CheckDir: SBMLR.Rcheck
Warnings: NA

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.2-bioc/meat/SBMLR.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ASCII
* checking for file 'SBMLR/DESCRIPTION' ... OK
* this is package 'SBMLR' version '1.34.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SBMLR' 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 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 ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating SBMLR-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'SBMLR-Ex.R' failed.
The error most likely occurred in:

> ### * equateModels
> 
> flush(stderr()); flush(stdout())
> 
> ### Name: equateModels
> ### Title: Check the equality of the species and reactions of two SBML
> ###   models
> ### Aliases: equateModels
> ### Keywords: math
> 
> ### ** Examples
> 
> library(SBMLR)  
> curto1=readSBMLR(file.path(system.file(package="SBMLR"), "models/curto.r"))  
Error in UseMethod("xmlName", node) : no applicable method for "xmlName"
Calls: readSBMLR ... append.XMLNode -> addNames -> sapply -> lapply -> FUN
Execution halted

SBMLR.Rcheck/00install.out:

* Installing *source* package 'SBMLR' ...
** R
** inst
** preparing package for lazy loading
Loading required package: XML
Loading required package: odesolve
** help
Note: removing empty section \details
 >>> Building/Updating help pages for package 'SBMLR'
     Formats: text html latex example 
  equateModels                      text    html    latex   example
  makeLaw                           text    html    latex   example
  readSBML                          text    html    latex   example
  readSBMLR                         text    html    latex   example
  saveSBML                          text    html    latex   example
  saveSBMLR                         text    html    latex   example
  simulate                          text    html    latex   example
  summary.SBML                      text    html    latex   example
** building package indices ...
* DONE (SBMLR)