mzID

Package: mzID
Type: Package
Title: An mzIdentML parser for R
Version: 1.10.2
Date: 2016-04-21
Author: Thomas Lin Pedersen, Vladislav A Petyuk with contributions from
Laurent Gatto and Sebastian Gibb.
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Description: A parser for mzIdentML files implemented using the XML package.
The parser tries to be general and able to handle all types of mzIdentML
files with the drawback of having less 'pretty' output than a vendor
specific parser. Please contact the maintainer with any problems and supply
an mzIdentML file so the problems can be fixed quickly.
License: GPL (>= 2)
LazyLoad: yes
biocViews: DataImport, MassSpectrometry, Proteomics
VignetteBuilder: knitr
Depends: methods
Imports: XML, plyr, parallel, doParallel, foreach, iterators,
ProtGenerics
Suggests: knitr, testthat
Collate: 'aaa.R' 'generics.R' 'mzIDpsm.R' 'mzIDpeptides.R'
'mzIDparameters.R' 'mzIDevidence.R' 'mzIDdatabase.R' 'mzID.R'
'mzIDCollection.R' 'mzID-constructor.R' 'mzID-package.R'
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-05-16 04:02:03 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'mzID' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'mzID'
    finding HTML links ... done
    flatten                                 html  
    increment                               html  
    keyFor                                  html  
    mzID-class                              html  
    mzID-getters                            html  
    mzID-package                            html  
    mzID                                    html  
    mzIDCollection-class                    html  
    mzIDCollection                          html  
    mzIDdatabase-class                      html  
    mzIDdatabase                            html  
Rd warning: /tmp/RtmpA6WC1F/R.INSTALL37c110bdaae/mzID/man/mzIDdatabase.Rd:11: missing file link 'xmlInternalTreeParse'
    mzIDevidence-class                      html  
    mzIDevidence                            html  
Rd warning: /tmp/RtmpA6WC1F/R.INSTALL37c110bdaae/mzID/man/mzIDevidence.Rd:11: missing file link 'xmlInternalTreeParse'
    mzIDparameters-class                    html  
    mzIDparameters                          html  
Rd warning: /tmp/RtmpA6WC1F/R.INSTALL37c110bdaae/mzID/man/mzIDparameters.Rd:11: missing file link 'xmlInternalTreeParse'
    mzIDpeptides-class                      html  
    mzIDpeptides                            html  
Rd warning: /tmp/RtmpA6WC1F/R.INSTALL37c110bdaae/mzID/man/mzIDpeptides.Rd:11: missing file link 'xmlInternalTreeParse'
    mzIDpsm-class                           html  
    mzIDpsm                                 html  
Rd warning: /tmp/RtmpA6WC1F/R.INSTALL37c110bdaae/mzID/man/mzIDpsm.Rd:11: missing file link 'xmlInternalTreeParse'
    removeDecoy                             html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (mzID)
Making 'packages.html' ... done