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Package 338/658HostnameOS / ArchBUILDCHECKBUILD BIN
iontree 1.5.0
Mingshu Cao
Snapshot Date: 2013-03-23 17:02:20 -0700 (Sat, 23 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/iontree
Last Changed Rev: 70052 / Revision: 74756
Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: iontree
Version: 1.5.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch iontree_1.5.0.tar.gz
StartedAt: 2013-03-24 06:46:53 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-24 06:48:03 -0700 (Sun, 24 Mar 2013)
EllapsedTime: 70.2 seconds
RetCode: 0
Status:  OK 
CheckDir: iontree.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/iontree.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'iontree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iontree' version '1.5.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'iontree' can be installed ... [6s/6s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* 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 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 ... NOTE
prepare_Rd: buildIonTree.Rd:18-19: Dropping empty section \details
prepare_Rd: buildIonTree.Rd:20-26: Dropping empty section \value
prepare_Rd: buildIonTree.Rd:27-29: Dropping empty section \references
prepare_Rd: buildIonTree.Rd:37-39: Dropping empty section \seealso
prepare_Rd: createDB.Rd:19-20: Dropping empty section \details
prepare_Rd: createDB.Rd:30-32: Dropping empty section \note
prepare_Rd: createDB.Rd:24-26: Dropping empty section \references
prepare_Rd: createDB.Rd:34-36: Dropping empty section \seealso
prepare_Rd: distMS2.Rd:18-19: Dropping empty section \details
prepare_Rd: distMS2.Rd:20-22: Dropping empty section \value
prepare_Rd: distMS2.Rd:29-31: Dropping empty section \note
prepare_Rd: distMS2.Rd:32-34: Dropping empty section \seealso
prepare_Rd: distMS2.Rd:35-36: Dropping empty section \examples
prepare_Rd: formatSpec.Rd:18-19: Dropping empty section \details
prepare_Rd: formatSpec.Rd:20-22: Dropping empty section \value
prepare_Rd: formatSpec.Rd:29-31: Dropping empty section \note
prepare_Rd: formatSpec.Rd:23-25: Dropping empty section \references
prepare_Rd: formatSpec.Rd:35-37: Dropping empty section \seealso
prepare_Rd: getMSnRaw.Rd:22-23: Dropping empty section \details
prepare_Rd: getMSnRaw.Rd:29-31: Dropping empty section \references
prepare_Rd: getMSnRaw.Rd:39-41: Dropping empty section \seealso
prepare_Rd: getMSnRaw.Rd:42-43: Dropping empty section \examples
prepare_Rd: getMetaInfo.Rd:17-18: Dropping empty section \details
prepare_Rd: getMetaInfo.Rd:19-25: Dropping empty section \value
prepare_Rd: getMetaInfo.Rd:32-34: Dropping empty section \note
prepare_Rd: getMetaInfo.Rd:26-28: Dropping empty section \references
prepare_Rd: getMetaInfo.Rd:36-38: Dropping empty section \seealso
prepare_Rd: getMetaInfo.Rd:39-40: Dropping empty section \examples
prepare_Rd: hasMS2.Rd:18-19: Dropping empty section \details
prepare_Rd: hasMS2.Rd:28-29: Dropping empty section \note
prepare_Rd: hasMS2.Rd:23-24: Dropping empty section \references
prepare_Rd: hasMS2.Rd:31-32: Dropping empty section \seealso
prepare_Rd: hasMS2.Rd:33-34: Dropping empty section \examples
prepare_Rd: iontree-class.Rd:30-32: Dropping empty section \references
prepare_Rd: iontree-class.Rd:40-41: Dropping empty section \seealso
prepare_Rd: iontree-package.Rd:32-33: Dropping empty section \seealso
prepare_Rd: iontree-package.Rd:34-35: Dropping empty section \examples
prepare_Rd: metaDataImport.Rd:17-19: Dropping empty section \details
prepare_Rd: metaDataImport.Rd:20-21: Dropping empty section \value
prepare_Rd: metaDataImport.Rd:22-24: Dropping empty section \references
prepare_Rd: metaDataImport.Rd:32-34: Dropping empty section \seealso
prepare_Rd: mzImport.Rd:18-19: Dropping empty section \details
prepare_Rd: mzImport.Rd:20-22: Dropping empty section \value
prepare_Rd: mzImport.Rd:23-25: Dropping empty section \references
prepare_Rd: mzImport.Rd:33-35: Dropping empty section \seealso
prepare_Rd: plotSpectrum.Rd:26-28: Dropping empty section \details
prepare_Rd: plotSpectrum.Rd:29-35: Dropping empty section \value
prepare_Rd: plotSpectrum.Rd:42-43: Dropping empty section \note
prepare_Rd: plotSpectrum.Rd:36-38: Dropping empty section \references
prepare_Rd: plotSpectrum.Rd:45-47: Dropping empty section \seealso
prepare_Rd: plotSpectrum.Rd:48-49: Dropping empty section \examples
prepare_Rd: rs2iontree.Rd:16-17: Dropping empty section \details
prepare_Rd: rs2iontree.Rd:27-28: Dropping empty section \note
prepare_Rd: rs2iontree.Rd:21-23: Dropping empty section \references
prepare_Rd: rs2iontree.Rd:30-31: Dropping empty section \seealso
prepare_Rd: rs2iontree.Rd:33-34: Dropping empty section \examples
prepare_Rd: saveMSnRaw.Rd:17-19: Dropping empty section \details
prepare_Rd: saveMSnRaw.Rd:20-26: Dropping empty section \value
prepare_Rd: saveMSnRaw.Rd:33-35: Dropping empty section \note
prepare_Rd: saveMSnRaw.Rd:27-29: Dropping empty section \references
prepare_Rd: saveMSnRaw.Rd:36-38: Dropping empty section \seealso
prepare_Rd: searchMS2.Rd:23-25: Dropping empty section \details
prepare_Rd: searchMS2.Rd:35-36: Dropping empty section \note
prepare_Rd: searchMS2.Rd:29-31: Dropping empty section \references
prepare_Rd: searchMS2.Rd:38-40: Dropping empty section \seealso
prepare_Rd: searchMS2.Rd:41-42: Dropping empty section \examples
prepare_Rd: topIons.Rd:17-19: Dropping empty section \details
prepare_Rd: topIons.Rd:29-31: Dropping empty section \note
prepare_Rd: topIons.Rd:23-25: Dropping empty section \references
* 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 installed files from 'inst/doc' ... OK
* checking examples ... [3s/3s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 3 notes.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/iontree.Rcheck/00check.log'
for details.

iontree.Rcheck/00install.out:

* installing *source* package 'iontree' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'iontree'
** help
*** installing help indices
** building package indices
** installing vignettes
   'iontree_doc.Rnw' 
** testing if installed package can be loaded
* DONE (iontree)

iontree.Rcheck/iontree-Ex.timings:

nameusersystemelapsed
buildIonTree0.0160.0010.017
createDB0.0150.0010.017
formatSpec0.0130.0010.015
iontree-class0.0110.0010.013
metaDataImport0.0120.0010.014
mzImport0.0120.0010.013
saveMSnRaw0.0910.0020.094
topIons0.0050.0010.006