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| library(shiny) | |
| library(bslib) | |
| library(shinybusy) | |
| source("utils.R") | |
| source("inat-ranges.R") | |
| public_endpoint <- Sys.getenv("AWS_PUBLIC_ENDPOINT", Sys.getenv("AWS_S3_ENDPOINT")) | |
| # intialize data | |
| load_h3() | |
| load_spatial() | |
| duckdbfs::duckdb_secrets() | |
| inat <- open_dataset("s3://public-inat/hex") | |
| taxa <- open_dataset(glue("s3://public-inat/taxonomy/taxa.parquet"), | |
| recursive = FALSE) |> rename(taxon_id = id) | |
| cache <- tempfile(fileext = ".json") | |
| # I/O limited, we can have many more processes than CPU threads | |
| con <- duckdbfs::cached_connection() | |
| DBI::dbExecute(con, "SET threads = 128;") | |
| ###### User interface ###### | |
| ui <- page_sidebar( | |
| title = "iNaturalist Rangemaps", | |
| markdown("Visualize species richness from [iNaturalist Range map datasets](https://www.inaturalist.org/pages/range_maps). | |
| Pan & zoom the map over the desired area and hit 'map richness', or draw the desired area with the draw tool. | |
| Filter by specific taxonomic ranks or view all 100,293 mapped species. | |
| Note that larger areas will be slower to compute. (Area selections that overlap the antimerdian may create visual artefacts). | |
| "), | |
| shinybusy::add_busy_spinner(), | |
| sidebar = sidebar( | |
| card( | |
| markdown("Filter by taxonomic group or toggle off to see all species."), | |
| input_switch("filter", "filter taxa:", value = TRUE), | |
| varSelectInput("rank", NULL, taxa, selected = "class"), | |
| textInput("taxon", NULL, "Aves") | |
| ), | |
| actionButton("get_features", "Map richness") | |
| ), | |
| card( | |
| maplibreOutput("map"), | |
| ) | |
| ) | |
| ###### Server ###### | |
| server <- function(input, output, session) { | |
| # observeEvent(input$map_bbox, { }) # We can react to any zoom/pan on the map | |
| output$map <- renderMaplibre({ | |
| # Hacky -- we sidecar the metadata here | |
| if(file.exists(cache)) { | |
| meta <- jsonlite::read_json(cache) | |
| print(meta$url) | |
| } else { | |
| meta <- list(X = -110, | |
| Y = 37, | |
| zoom = 4, | |
| url = paste0("https://", | |
| public_endpoint, | |
| "/public-data/inat-tmp-ranges.h3j")) | |
| } | |
| m <- richness_map(meta) | |
| m | |
| }) | |
| observeEvent(input$get_features, { | |
| # Use the bbox as the focal area unless user has selected a focal area | |
| drawn_features <- get_drawn_features(mapboxgl_proxy("map")) | |
| if(nrow(drawn_features) > 0) { | |
| aoi <- drawn_features | |
| } else if (!is.null(input$map_bbox)){ | |
| aoi <- sf::st_bbox(unlist(input$map_bbox), crs = 4326) | |
| } else { | |
| aoi <- spData::us_states | |
| } | |
| rank <- taxon <- NULL | |
| if (input$filter) { | |
| rank <- input$rank | |
| taxon <- input$taxon | |
| } | |
| message("Computing richness...") | |
| meta <- richness(inat, aoi, rank, taxon, zoom = input$map_zoom) | |
| jsonlite::write_json(meta, cache, auto_unbox = TRUE) | |
| message(paste("rendering", meta$url)) | |
| session$reload() | |
| }) | |
| } | |
| shinyApp(ui, server) |