R/mod_lpi_time_series.R

In ReseauBiodiversiteQuebec/tableaulpi: Tableau de l'Indice Planete Vivante

#' lpi_time_series UI Function
#'
#' @description A shiny Module to show the LPI trend line plot for a selected taxonomic group, with a loading spinner.
#'
#' @param id,input,output,session Internal parameters for {shiny}.
#'
#' @noRd
#'
#' @importFrom shiny NS tagList

mod_lpi_time_series_ui <- function(id, spp_menu_title = "Groupe d'espèces", start_sel = "Tous"){
  ns <- NS(id)
  tagList(
    fluidRow(
      shinyWidgets::radioGroupButtons(ns("target_taxa"),
                                      label = spp_menu_title,
                                      choiceValues = list("Tous", "Amphibiens", "Mammifères", "Oiseaux", "Poissons", "Reptiles"),
                                      choiceNames = list(HTML("<i class='finature-collection nature-collection-landscape-1'>Tous</i>"),
                                                         HTML("<i class='fianimals animals-010-frog'>Amphibiens</i>"),
                                                         HTML("<i class='fianimals animals-015-squirrel'>Mammifères</i>"),
                                                         HTML("<i class='fianimals animals-020-bird'>Oiseaux</i>"),
                                                         HTML("<i class='finature-collection nature-collection-fish'>Poissons</i>"),
                                                         HTML("<i class='fianimals animals-038-turtle'>Reptiles</i>")),
                                      #direction = "vertical",
                                      status = 'primary fibuttons', 
                                      size = "sm", 
                                      justified = TRUE, 
                                      selected = start_sel)
      ),
    fluidRow(
      shinycssloaders::withSpinner(
        plotly::plotlyOutput(outputId = ns("indextrend"), width = "100%"),
        type = 8,
        color = "#7bb5b1", 
        size = 1
      )
    ),
    fluidRow(
      h4("Sommaire des données"),
      p("L'Indice Planète Vivante ci-dessus est basée sur les populations suivis pendant un minimum de six ans."),
      shiny::htmlOutput(ns("data_stats"))
    )
  )
}

#' lpi_time_series Server Functions
#'
#' @noRd
mod_lpi_time_series_server <- function(id){
  moduleServer( id, function(input, output, session){
    ns <- session$ns
    
    output$data_stats <- renderUI({
      
      obs <- tableaulpi::filter_atlas(input$target_taxa)
      # subset to observations with at least 6 observations in time
      # (to reflect what is actually included when the LPI is calculated)
      # see utils_calculate_LPI.R
      obs <- obs[unlist(lapply(obs$years, length)) >= 6,]
      
      # Make a named list of summary stats
      d <- list(
        "n_sp" = length(unique(obs$id_taxa)),
        "n_pop" = length(unique(obs$id)),
        "mean_tslength" = unlist(lapply(obs$years, length)) %>% mean(na.rm = TRUE) %>% floor()
      )
      
      div(
        stats_card(d$n_pop,'Populations', 'map-marker', 'main-1', 'col-sm-4'),
        stats_card(d$n_sp, 'Espèces', 'bug', 'main-2', 'col-sm-4'),
        stats_card(d$mean_tslength, 'ans par suivi', 'clock', 'main-3', 'col-sm-4')
      )
    }
    )
    
    output$indextrend <- plotly::renderPlotly({
      make_indextrend(target_taxa = input$target_taxa)}
      )
  })
}

## To be copied in the UI
# mod_lpi_time_series_ui("lpi_time_series_ui_1")

## To be copied in the server
# mod_lpi_time_series_server("lpi_time_series_ui_1")


#### Test ####

testapp_lpi_timeseries <- function(){
  ui <- fluidPage(
    mod_lpi_time_series_ui("test")
  )

  server <-  function(input, output, session) {

    mod_lpi_time_series_server("test",
                               target_taxa = reactive("tous"))
  }
  shinyApp(ui, server)
}

testapp_lpi_timeseries()