Package: msdata

Version: 0.1.5

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings msdata_0.1.5.tar.gz

StartedAt: 2011-10-19 01:14:17 -0700 (Wed, 19 Oct 2011)

EndedAt: 2011-10-19 01:14:27 -0700 (Wed, 19 Oct 2011)

EllapsedTime: 10.1 seconds

RetCode: 1

Status:  ERROR

CheckDir: msdata.Rcheck

Warnings: NA

* using log directory ‘/loc/home/biocbuild/bbs-2.8-data-experiment/meat/msdata.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘msdata/DESCRIPTION’ ... OK
* this is package ‘msdata’ version ‘0.1.5’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘msdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 23.2Mb
  sub-directories of 1Mb or more:
    fticr       5.8Mb
    microtofq  15.3Mb
    iontrap     1.7Mb
* 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 ... OK
* 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 examples ... ERROR
Running examples in ‘msdata-Ex.R’ failed
The error most likely occurred in:

> assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: msdata
> ### Title: Sample FTICR, LC/MS and MS$^n$ data
> ### Aliases: msdata xs x
> ### Keywords: datasets
> 
> ### ** Examples
> 
> ## The directory with the mzData LC/MS files
> mzdatapath <- file.path(.find.package("msdata"), "iontrap")
> mzdatapath
[1] "/loc/home/biocbuild/bbs-2.8-data-experiment/meat/msdata.Rcheck/msdata/iontrap"
> files <- list.files(mzdatapath, recursive = TRUE, full.names = TRUE)
> 
> if (require(xcms)) {
+ 
+ ## xcmsSet Summary
+ show(xs)
+ 
+ ## Access raw data file
+ x <- xcmsRaw(files[1])
+ x
+ 
+ }
Loading required package: xcms
Execution halted

* installing *source* package ‘msdata’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (msdata)

name	user	system	elapsed