# Create a preset editor.
preset_editor_ui <- function(id) {
    species_choices <- species$id
    names(species_choices) <- species$name

    species_selected <- species_ids_replicative

    known_genes <- genes[name != ""]
    gene_choices <- known_genes$id
    names(gene_choices) <- known_genes$name

    genes_selected <- genes[suggested | verified == TRUE, id]

    verticalLayout(
        h3("Preset"),
        selectInput(
            NS(id, "preset"),
            "Default presets",
            choices = list(
                "Replicatively aging species" = "replicative",
                "All species" = "all",
                "Customize" = "custom"
            )
        ),
        conditionalPanel(
            sprintf("input['%s'] == 'custom'", NS(id, "preset")),
            shinyWidgets::pickerInput(
                inputId = NS(id, "species"),
                label = "Included species",
                choices = species_choices,
                selected = species_selected,
                options = list(
                    "actions-box" = TRUE,
                    "live-search" = TRUE
                ),
                multiple = TRUE
            ),
            shinyWidgets::pickerInput(
                inputId = NS(id, "reference_genes"),
                label = "Reference genes",
                choices = gene_choices,
                selected = genes_selected,
                options = list(
                    "actions-box" = TRUE,
                    "live-search" = TRUE
                ),
                multiple = TRUE
            ),
            actionButton(
                NS(id, "apply_button"),
                "Perform analysis",
                class = "btn-primary",
                style = "margin-top: 16px; margin-bottom: 16px"
            )
        )
    )
}

# Create a server for the preset editor.
#
# @param id ID for namespacing the inputs and outputs.
#
# @return A reactive containing the preset.
preset_editor_server <- function(id) {
    moduleServer(id, function(input, output, session) {
        result <- reactiveVal(preset_replicative_species)

        observeEvent(input$preset, {
            if (input$preset == "replicative") {
                result(preset_replicative_species)
            } else if (input$preset == "all") {
                result(preset_all_species)
            }
        })

        observeEvent(input$apply_button, {
            result(geposan::preset(
                methods <- c(
                    "clusteriness",
                    "correlation",
                    "proximity",
                    "neural"
                ),
                species = input$species,
                genes = genes$id,
                reference_genes = input$reference_genes
            ))
        })

        result
    })
}