R/servers.R

In treespace: Statistical Exploration of Landscapes of Phylogenetic Trees

#'
#' Web-based tree explorer
#'
#' This function opens up an application in a web browser for an interactive exploration of the diversity in a set of trees.
#' For further details please see the "help" tab within the application.
#' 
#' @seealso For convenience, \code{treespaceServer} is also available as a separate web app which can be used from any browser (it is not necessary to have \R installed): \url{https://mkendall.shinyapps.io/treespace/} 
#'
#' @author Thibaut Jombart \email{thibautjombart@@gmail.com}
#' @author Michelle Kendall \email{michelle.louise.kendall@@gmail.com}
#'
#' @import ape

#' @import scatterD3
#' @import shiny
#' @import rgl
#' @importFrom ade4 dudi.pco
#' @importFrom adegraphics s1d.barchart 
#' @importFrom adegraphics s.class 
#' @importFrom adegraphics s.label
#@importFrom adephylo distTips
#' @importFrom distory dist.multiPhylo
#' @importFrom fields rdist
#' @importFrom htmlwidgets saveWidget
#' @importFrom MASS Shepard
#' @importFrom phangorn Children
#' @importFrom phangorn Descendants
#' @importFrom RLumShiny jscolorInput
#' @importFrom shinyBS bsTooltip
#' @importFrom utils packageDescription
#' 
#' 
#' 
#' @export
treespaceServer <- function(){
    ## RUN APP
    options(rgl.useNULL=TRUE)
    runApp(system.file("shiny",package="treespace"))
    return(invisible())
}





#'
#' Auxiliary functions
#'
#' These functions are not supposed to be used by the user.
#'
#' @author Thibaut Jombart \email{thibautjombart@@gmail.com}
#'
#'
#' @importFrom adegenet .readExt
#'
#' @export
.render.server.info <- function(){
    renderPrint(
            {
                cat("\n== R version ==\n")
                print(R.version)

                cat("\n== Date ==\n")
                print(date())

                cat("\n== treespace version ==\n")
                print(packageDescription("treespace", fields=c("Package", "Version", "Date", "Built")))

                cat("\n== shiny version ==\n")
                print(packageDescription("shiny", fields=c("Package", "Version", "Date", "Built")))

                cat("\n== attached packages ==\n")
                print(search())
            }
                ) # end renderPrint
} # end .render.server.info