A Report Generated by knitr

This report is automatically generated with the R package knitr (version `1.5`) .

    # Chapter 20 - Ten Tips on Working with Packages Poking Around the Nooks and Crannies of
    # CRAN
    options(repos = c(CRAN = "http://cran.ma.imperial.ac.uk/"))
    ## Finding Interesting Packages Installing Packages
    install.packages("fortunes")

    ## Error in install.packages : Updating loaded packages

    ## Loading Packages
    library("fortunes")
    ## Reading the Package Manual and Vignette
    library(help = fortunes)
    vignette("fortunes")
    ## Updating Packages
    update.packages()

    ## Warning: package 'arules' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'car' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'class' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'forecast' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'Hmisc' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'igraph' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'KernSmooth' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'MASS' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'Matrix' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'nnet' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'plyr' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'Rcpp' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'RcppArmadillo' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'rgeos' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'rJava' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'rpart' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'rpart.plot' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'scales' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'sp' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated
    ## Warning: package 'zoo' in library 'C:/Revolution/R-Enterprise-7.1/R-3.0.2/library' will not be updated

    ## arm :
    ##  Version 1.6-10 installed in C:/Users/Andrie/Documents/R/win-library/3.0
    ##  Version 1.7-03 available at http://cran.ma.imperial.ac.uk
    ## arules :
    ##  Version 1.1-1 installed in C:/Users/Andrie/Documents/R/win-library/3.0
    ##  Version 1.1-2 available at http://cran.ma.imperial.ac.uk
    ## BH :
    ##  Version 1.51.0-4 installed in C:/Users/Andrie/Documents/R/win-library/3.0
    ##  Version 1.54.0-2 available at http://cran.ma.imperial.ac.uk
    ## bit :
    ##  Version 1.1-11 installed in C:/Users/Andrie/Documents/R/win-library/3.0
    ##  Version 1.1-12 available at http://cran.ma.imperial.ac.uk
    ## cancelled by user

    ## Unloading Packages
    search()

    ##  [1] ".GlobalEnv"            "package:fortunes"      "package:BiocInstaller"
    ##  [4] "package:ggplot2"       "package:reshape2"      "package:sos"
    ##  [7] "package:brew"          "package:stringr"       "package:knitr"
    ## [10] "package:plyr"          "tools:rstudio"         "package:Revobase"
    ## [13] "package:RevoMods"      "package:RevoScaleR"    "package:lattice"
    ## [16] "package:rpart"         "package:stats"         "package:graphics"
    ## [19] "package:grDevices"     "package:utils"         "package:datasets"
    ## [22] "package:methods"       "Autoloads"             "package:base"

    detach(package:fortunes, unload = TRUE)
    ## Forging Ahead with R-Forge
    install.packages("data.table", repos = "http://R-Forge.R-project.org")

    ## Installing package into 'C:/Users/Andrie/Documents/R/win-library/3.0'
    ## (as 'lib' is unspecified)

    ## package 'data.table' successfully unpacked and MD5 sums checked
    ##
    ## The downloaded binary packages are in
    ## 	C:\Users\Andrie\AppData\Local\Temp\RtmpKC3x2f\downloaded_packages

    ## Conducting Installations from BioConductor
    source("http://bioconductor.org/biocLite.R")

    ## Bioconductor version 2.13 (BiocInstaller 1.12.1), ?biocLite for help
    ## A newer version of Bioconductor is available after installing a new version of R,
    ##   ?BiocUpgrade for help

    ## Reading the R Manual

The R session information (including the OS info, R version and all packages used):

    sessionInfo()

    ## R version 3.0.2 (2013-09-25)
    ## Platform: x86_64-w64-mingw32/x64 (64-bit)
    ##
    ## locale:
    ## [1] LC_COLLATE=English_United Kingdom.1252  LC_CTYPE=English_United Kingdom.1252
    ## [3] LC_MONETARY=English_United Kingdom.1252 LC_NUMERIC=C
    ## [5] LC_TIME=English_United Kingdom.1252
    ##
    ## attached base packages:
    ## [1] stats     graphics  grDevices utils     datasets  methods   base
    ##
    ## other attached packages:
    ##  [1] BiocInstaller_1.12.1 ggplot2_0.9.3.1      reshape2_1.2.2       sos_1.3-8
    ##  [5] brew_1.0-6           stringr_0.6.2        knitr_1.5            plyr_1.8
    ##  [9] Revobase_7.1.0       RevoMods_7.1.0       RevoScaleR_7.1.0     lattice_0.20-27
    ## [13] rpart_4.1-2
    ##
    ## loaded via a namespace (and not attached):
    ##  [1] codetools_0.2-8    colorspace_1.2-4   dichromat_2.0-0    digest_0.6.4
    ##  [5] evaluate_0.5.1     foreach_1.4.1      formatR_0.10       grid_3.0.2
    ##  [9] gtable_0.1.2       highr_0.3          iterators_1.0.6    labeling_0.2
    ## [13] MASS_7.3-29        munsell_0.4.2      proto_0.3-10       RColorBrewer_1.0-5
    ## [17] scales_0.2.3       tools_3.0.2

    Sys.time()

    ## [1] "2014-05-13 15:07:17 BST"