ReportingTools

Package: ReportingTools
Title: Tools for making reports in various formats
Version: 2.12.2
Author: Jason A. Hackney, Melanie Huntley, Jessica L. Larson, Christina
Chaivorapol, Gabriel Becker, and Josh Kaminker
Maintainer: Jason A. Hackney <hackney.jason@gene.com>, Gabriel Becker
<becker.gabe@gene.com>, Jessica L. Larson <larson.jessica@gmail.com>
Depends: methods, knitr, utils
Imports: Biobase, hwriter, Category, GOstats, limma (>=
3.17.5), lattice, AnnotationDbi, edgeR, annotate, PFAM.db,
GSEABase, BiocGenerics (>= 0.1.6), grid, XML, R.utils, DESeq2 (>=
1.3.41), ggplot2, ggbio, IRanges
Suggests: RUnit, ALL, hgu95av2.db, org.Mm.eg.db, shiny, pasilla,
Type: Package
LazyLoad: yes
License: Artistic-2.0
Description: The ReportingTools software package enables users to
easily display reports of analysis results generated from
sources such as microarray and sequencing data. The package
allows users to create HTML pages that may be viewed on a web
browser such as Safari, or in other formats readable by
programs such as Excel. Users can generate tables with
sortable and filterable columns, make and display plots, and
link table entries to other data sources such as NCBI or larger
plots within the HTML page. Using the package, users can also
produce a table of contents page to link various reports
together for a particular project that can be viewed in a web
browser. For more examples, please visit our site: http://
research-pub.gene.com/ReportingTools.
ByteCompile: TRUE
VignetteBuilder: utils, knitr
biocViews: Software, Visualization, Microarray, RNASeq, GO,
DataRepresentation, GeneSetEnrichment
NeedsCompilation: no
Packaged: 2016-05-16 03:37:18 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ReportingTools' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'ggplot2::Position' by 'BiocGenerics::Position' when loading 'ggbio'
in method for 'objectToHTML' with signature 'object="ggbio"': no definition for class "ggbio"
Note: no visible binding for '<<-' assignment to '.reportDirectory' 
Note: no visible binding for '<<-' assignment to '.reportDirectory' 
** help
*** installing help indices
  converting help for package 'ReportingTools'
    finding HTML links ... done
    BaseReportType-class                    html  
    CSVFile-class                           html  
    CSVFile                                 html  
    DataPackage-class                       html  
    DataPackage                             html  
    HTMLReport-class                        html  
    HTMLReport                              html  
    HTMLReportRef-class                     html  
    Link                                    html  
    ReportHandlers-class                    html  
    addReportColumns-methods                html  
    custHeaderPanel                         html  
    filename-methods                        html  
    finish-methods                          html  
    makeDESeqDF                             html  
    mockRnaSeqData                          html  
    objectToHTML-methods                    html  
    publish-methods                         html  
    finding level-2 HTML links ... done

    readReport                              html  
    reporting.theme                         html  
    reporting.theme.alternate               html  
    toReportDF-methods                      html  
    validConnection                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'ggplot2::Position' by 'BiocGenerics::Position' when loading 'ggbio'
* DONE (ReportingTools)
Making 'packages.html' ... done