megaptera

Package: megaptera
Type: Package
Title: MEGAPhylogeny Techniques in R
Version: 1.0-0
Date: 2014-10-30
Author: Christoph Heibl
Maintainer: Christoph Heibl <christoph.heibl@gmx.net>
Depends: R (>= 2.10), snowfall, ips
Imports: ape, seqinr, methods, RPostgreSQL, XML
Suggests: knitr
Description: Given a set of taxa and marker, the goal is build a complete and correct sequence alignment for phylogenetic analysis.
License: GPL (>= 2)
VignetteBuilder: knitr
Packaged: 2014-11-13 06:55:15 UTC; stoffi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 08:44:56

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'megaptera' ...
** package 'megaptera' successfully unpacked and MD5 sums checked
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'megaptera'
    finding HTML links ... done
    NCBIeaa                                 html  
    addTip                                  html  
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/addTip.Rd:12: missing file link 'phylo'
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/addTip.Rd:28: missing file link 'phylo'
    cetacea                                 html  
    check.Function                          html  
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/check.Function.Rd:31: missing file link 'phylo'
    dbPars-class                            html  
    dbPars                                  html  
    dbReadTaxonomy                          html  
    dbUpdateTaxonomy                        html  
    fleshoutGuidetree                       html  
    finding level-2 HTML links ... done

    io.dna.db                               html  
    locus-class                             html  
    locus                                   html  
    megaptera-internal                      html  
    megaptera-package                       html  
    megapteraPars-class                     html  
    megapteraPars                           html  
    megapteraProj-class                     html  
    megapteraProj                           html  
    ncbiTaxonomy                            html  
    prune.phylo.rank                        html  
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/prune.phylo.rank.Rd:8: missing file link 'phylo'
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/prune.phylo.rank.Rd:15: missing file link 'phylo'
Rd warning: /tmp/Rtmp9My87b/R.INSTALL79555d8e190b/megaptera/man/prune.phylo.rank.Rd:31: missing file link 'phylo'
    setLocus                                html  
    stepA                                   html  
    stepB                                   html  
    stepC                                   html  
    stepD                                   html  
    stepE                                   html  
    stepF                                   html  
    stepG                                   html  
    stepH                                   html  
    strip.infraspec                         html  
    taxon-class                             html  
    taxon                                   html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (megaptera)
Making 'packages.html' ... done