msdata 0.1.3
Steffen Neumann
| Snapshot Date: 2008-10-16 12:02:11 -0700 (Thu, 16 Oct 2008) | | URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/msdata | | Last Changed Rev: 693 / Revision: 729 | | Last Changed Date: 2008-07-14 06:49:32 -0700 (Mon, 14 Jul 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | 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 |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-data-experiment/meat/msdata.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'msdata/DESCRIPTION' ... OK
* this is package 'msdata' version '0.1.3'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'msdata' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... 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
* checking data for non-ASCII characters ... OK
* creating msdata-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'msdata-Ex.R' failed.
The error most likely occurred in:
> ### * msdata
>
> flush(stderr()); flush(stdout())
>
> ### 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] "E:/biocbld/bbs-2.2-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
Error in cat("An \"xcmsSet\" object with", length(object@sampnames), "samples\n\n") :
no slot of name "sampnames" for this object of class "xcmsSet"
Calls: show -> show -> cat
Execution halted
installing R.css in E:/biocbld/bbs-2.2-data-experiment/meat/msdata.Rcheck
---------- Making package msdata ------------
adding build stamp to DESCRIPTION
installing R files
installing inst files
installing data files
installing man source files
installing indices
not zipping data
installing help
>>> Building/Updating help pages for package 'msdata'
Formats: text html latex example chm
msdata text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-data-experiment\meat\msdata.Rcheck\00_pkg_src\msdata\chm\msdata.chm
Compile time: 0 minutes, 0 seconds
2 Topics
4 Local links
0 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-data-experiment\meat\msdata.Rcheck\00_pkg_src\msdata\chm\msdata.chm, 16,695 bytes
Compression increased file by 8,508 bytes.
adding MD5 sums
* DONE (msdata)