ips

Package: ips
Version: 0.0-7
Date: 2014-11-09
Title: Interfaces to Phylogenetic Software in R
Author: Christoph Heibl <christoph.heibl@gmx.net>
Maintainer: Christoph Heibl <christoph.heibl@gmx.net>
Depends: ape, colorspace, XML
Description: This package provides functions that wrap popular phylogenetic software for sequence alignment, masking of sequence alignments, and estimation of phylogenies and ancestral character states.
License: GPL (>= 2)
Packaged: 2014-11-09 21:46:41 UTC; stoffi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 00:38:44

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ips' ...
** package 'ips' successfully unpacked and MD5 sums checked
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ips'
    finding HTML links ... done
    aliscore                                html  
    code.simple.gaps                        html  
    finding level-2 HTML links ... done

    collapseUnsupportedEdges                html  
    deleteEmptyCells                        html  
    deleteGaps                              html  
    descendants                             html  
Rd warning: /tmp/RtmpcYp3qW/R.INSTALL453718b3f8d5/ips/man/descendants.Rd:15: missing file link 'phylo'
    fixNodes                                html  
Rd warning: /tmp/RtmpcYp3qW/R.INSTALL453718b3f8d5/ips/man/fixNodes.Rd:24: missing file link 'phylo'
    gblocks                                 html  
    ips-internal                            html  
    ips-package                             html  
    ips.16S                                 html  
    ips.28S                                 html  
    ips.cox1                                html  
    ips.tree                                html  
    mafft                                   html  
    mrbayes                                 html  
    multistate                              html  
    noi                                     html  
Rd warning: /tmp/RtmpcYp3qW/R.INSTALL453718b3f8d5/ips/man/noi.Rd:16: missing file link 'phylo'
    pis                                     html  
    prank                                   html  
    raxml                                   html  
    raxml.partitions                        html  
    rbeauti                                 html  
    read.beast                              html  
    read.beast.table                        html  
    read.fas                                html  
    sister                                  html  
    tipHeights                              html  
    traitRate                               html  
    trimEnds                                html  
    write.fas                               html  
    write.partitioned.nex                   html  
** building package indices
** testing if installed package can be loaded
* DONE (ips)
Making 'packages.html' ... done