Update app.R

app.R

@@ -1,65 +1,171 @@
 library(shiny)
-library(shinyjs)
-library(shinyWidgets)
-library(shinythemes)
-library(GWalkR)
-
-
-ui <- fluidPage(
-  includeCSS("styles.css"),
-  useShinyjs(),
-  setBackgroundColor(color = c("white","#007acc"),gradient = c("linear","radial")),
-  title = "Data Explorer",
-  theme = shinytheme("cerulean"),
-  tags$h3(id = "title", tags$strong("Graphic-Walker Data Explorer"),style = "text-align:center;color:#007acc;"),
-  tags$a(href = "https://github.com/Ifeanyi55", tags$strong("Maintainer"),target = "_blank",style = "text-decoration:none;color:#007acc;margin-left:1250px;margin-bottom:1000px"),
-  br(),br(),
-  sidebarLayout(sidebarPanel = "",
-    mainPanel(align = "center",
-              width = 12,
-      fileInput("target_upload",h5(strong("Click to Upload CSV File"),style = "color:#007acc;"),
-                accept = c("text/csv"),
-                buttonLabel = strong("Select File",style = "color:#007acc;"),
-                placeholder = "No file selected"),
-      actionButton("reset",strong("Reset"),icon = icon("refresh"),style = "color:#007acc;"),
-      a(href = "https://github.com/Kanaries/GWalkR",h6(strong("Learn More"),style = "color:#007acc;margin-left:-1220px;margin-top:-170px;font-size:15px;"),target = "_blank",style = "text-decoration: none;"),
-      gwalkrOutput(outputId = "explorer",width = "101%")
+library(bs4Dash)
+library(leaflet)
+library(highcharter)
+library(reactable)
+library(reactablefmtr)
+library(data.table)
+library(dplyr)
+library(lubridate)
+
+
+# load map function
+source("Map.R")
+
+# load plot function
+source("Plot.R")
+
+# load table function
+source("Table.R")
+
+# load dataset
+bio_poland <- fread("poland.csv")
+
+# filter dataset and select relevant columns
+poland_bio <- bio_poland |>
+  filter(vernacularName != "") |>
+  select(
+    vernacularName,
+    longitudeDecimal,
+    latitudeDecimal,
+    individualCount,
+    eventDate,
+    locality
+  ) |>
+  mutate(eventDate = as_date(eventDate))
+
+
+# add blanks to vector of choices so that the widget loads blank
+choices2 <- unique(poland_bio$vernacularName)
+
+
+# create dashboard brand
+dash_title <- dashboardBrand(
+  title = "Biodiversity in Poland",
+  color = "primary",
+  href = "https://www.gbif.org/occurrence/search?q=Poland&country=PL",
+  image = "bird_2.jpg"
+)
+
+# define UI
+ui <- dashboardPage(
+  title = "Biodiversity",
+  scrollToTop = T,
+  help = NULL,
+  dark = NULL,
+  header = dashboardHeader(title = dash_title),
+  sidebar = dashboardSidebar(disable = T),
+  footer = dashboardFooter(left = "Source: Global Biodiversity Informational Facility"),
+  body = dashboardBody(
+    tags$style(HTML("
+    .box {
+      border: 2px solid #007bff !important;
+      box-shadow: none !important;
+    }
+  ")),
+    fluidRow(
+      column(
+        12,
+        selectizeInput("vernacular",
+          label = strong("Vernacular Name"),
+          choices = choices2,
+          selected = "Mandarin Duck",
+          width = "100%"
+        )
+      )
+    ),
+    fluidRow(
+      box(
+        class = "box",
+        title = "Map of Observations",
+        width = 12,
+        status = "primary",
+        solidHeader = T,
+        leafletOutput("map_plot"), elevation = 4
+      )
+    ),
+    fluidRow(
+      box(
+        class = "box",
+        title = "Plot of Observation Over time",
+        status = "primary",
+        solidHeader = T,
+        highchartOutput("chart"), elevation = 4
+      ),
+      box(
+        class = "box",
+        title = "Observation Data",
+        status = "primary",
+        solidHeader = T,
+        reactableOutput("table", height = 400),
+        elevation = 4
+      )
     )
-  )
+  ),
+  fullscreen = T
 )
 
-server <- function(input,output,session){
-  
-  # increase file upload size to 100MB
-  options(shiny.maxRequestSize = 100 * 1024^2)  
-  
-  file_upload <- reactive({
-    inFile <- input$target_upload
-    if(is.null(inFile)){return(NULL)}
-    data <- read.csv(inFile$datapath,header = TRUE,sep = ",")
-    return(data)
+# Define server logic required to draw a histogram
+server <- function(input, output, session) {
+  # make input values reactive and return the defaults if both input values are NULL
+  input_vernacular <- reactive({
+    input$vernacular %||% "Mandarin Duck"
+  })
+
+
+  # render map
+  output$map_plot <- renderLeaflet({
+    req(poland_bio)
+    tryCatch(
+      {
+        mapData(
+          df = poland_bio,
+          vernacular = input_vernacular()
+        )
+      },
+      error = function(e) {
+        leaflet() |>
+          addTiles() |>
+          addPopups(lng = 0, lat = 0, popup = "No data available for the selected filters")
+      }
+    )
   })
-  
-  
-  
-  output$explorer <- renderGwalkr({
+
+  # render chart
+  output$chart <- renderHighchart({
+    req(poland_bio)
     tryCatch(
       {
-      
-        gwalkr(file_upload())
-      
+        plotData(
+          df = poland_bio,
+          vernacular = input_vernacular()
+        )
       },
-      error = function(e){
-        message("Could not display interface")
+      error = function(e) {
+        highchart() |>
+          hc_title(text = "No data available for the selected filters")
       }
     )
   })
-  
-  # refresh app
-  observeEvent(input$reset,{
-    runjs("location.reload();")
+
+  # render table
+  output$table <- renderReactable({
+    req(poland_bio)
+    tryCatch(
+      {
+        tableFunction(
+          df = poland_bio,
+          vernacular = input_vernacular()
+        )
+      },
+      error = function(e) {
+        reactable(data.frame(
+          Message = "No data available for the selected filters"
+        ))
+      }
+    )
   })
 }
 
-shinyApp(ui,server)
-
+# Run the application
+shinyApp(ui = ui, server = server)