tidycwl_shiny: Shiny bindings for tidycwl

In sbg/tidycwl: Tidy Common Workflow Language Tools and Workflows

Shiny bindings for tidycwl

Description

Output and renderer functions for using tidycwl within Shiny apps and interactive R Markdown documents.

Usage

cwl_output(outputId, width = "100%", height = "600px")

render_cwl(expr, env = parent.frame(), quoted = FALSE)

Arguments

outputId	output variable to read from
width, height	Must be a valid CSS unit (like "100%", "600px", "auto") or a number, which will be coerced to a string and have "px" appended.
expr	An expression that generates a CWL graph
env	The environment in which to evaluate expr.
quoted	Is expr a quoted expression (with quote())? This is useful if you want to save an expression in a variable.

Value

An output or render function that enables the use of the widget within Shiny apps.

Examples

if (interactive()) {
  library("shiny")
  library("tidycwl")

  cwl_folder <- system.file("cwl/sbg/workflow/", package = "tidycwl")
  file_all <- list.files(cwl_folder)
  cwl_name <- file_all[which(tools::file_ext(file_all) == "json")]

  ui <- fluidPage(
    selectInput("cwl_file", "Select a CWL file:", cwl_name),
    cwl_output("cwl_plot", height = "800px")
  )

  server <- function(input, output, session) {
    output$cwl_plot <- render_cwl({
      flow <- paste0(cwl_folder, input$cwl_file) %>% read_cwl_json()
      get_graph(
        flow %>% parse_inputs(),
        flow %>% parse_outputs(),
        flow %>% parse_steps()
      ) %>% visualize_graph()
    })
  }

  shinyApp(ui, server)
}

sbg/tidycwl documentation built on June 5, 2024, 3:29 p.m.