inst/docker/reporttool/rabix/generator.R

In sbg/sevenbridges-r: Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R

library("sevenbridges")

rbx <- Tool(
  id = "reporttool",
  label = "reporttool",
  description = "Reporiting tools support you pass shiny app and knitr Rmakrdown template",
  hints = requirements(docker(pull = "tengfei/reporttool")),
  baseCommand = "report.R",
  inputs = list(
    input(
      id = "shinyTemplate",
      description = "Shinay app template as zipped(.zip) or tar(tar.gz) file.",
      type = ItemArray("File"),
      prefix = "--shinyTemplate",
      itemSeparator = ",",
      cmdInclude = TRUE
    ),
    input(
      id = "knitrTemplate",
      description = "Rmarkdown file template will be rendered by knitr",
      type = ItemArray("File"),
      prefix = "--knitrTemplate",
      itemSeparator = ",",
      cmdInclude = TRUE
    ),
    input(
      id = "data",
      description = "Files to be included in data folder of app",
      type = "File...", # the same as ItemArray("File")
      prefix = "--data",
      itemSeparator = ",",
      cmdInclude = TRUE
    ),
    input(
      id = "www",
      description = "Files to be included in www folder of app",
      type = ItemArray("File"),
      prefix = "--www",
      itemSeparator = ",",
      cmdInclude = TRUE
    ),
    input(
      id = "src",
      description = "Files to be included in src folder of app",
      type = ItemArray("File"),
      prefix = "--src",
      cmdInclude = TRUE
    ),
    input(
      id = "appFiles",
      description = "Files to be included in root of app folder",
      type = ItemArray("File"),
      prefix = "--appFiles",
      itemSeparator = ",",
      cmdInclude = TRUE
    ),
    input(
      id = "name",
      description = "Name of account to save or remove, check shinyapps::setAccountInfo",
      type = "string",
      prefix = "--name",
      cmdInclude = TRUE
    ),
    input(
      id = "token",
      description = "User token for the account, check shinyapps::setAccountInfo",
      type = "string",
      prefix = "--token",
      cmdInclude = TRUE
    ),
    input(
      id = "secret",
      description = "User secret for the account, check shinyapps::setAccountInfo",
      type = "string",
      prefix = "--secret",
      cmdInclude = TRUE
    ),
    input(
      id = "contentCategory",
      description = "Optional; the kind of content being deployed (e.g. 'plot', 'document', or 'application').",
      type = "string",
      prefix = "--contentCategory",
      cmdInclude = TRUE
    ),
    input(
      id = "account",
      description = "Account to deploy application to. This parameter is only required for the initial deployment of an application when there are multiple accounts configured on the system (see accounts).",
      type = "string",
      prefix = "--account",
      cmdInclude = TRUE
    ),
    input(
      id = "server",
      description = "Server name. Required only if you use the same account name on multiple servers.",
      type = "string",
      prefix = "--server",
      cmdInclude = TRUE
    ),
    input(
      id = "quiet",
      description = "Request that no status information be printed to the console during the deployment.",
      type = "boolean",
      prefix = "--quiet",
      cmdInclude = TRUE
    ),
    input(
      id = "engine",
      description = "packrat or liftr (docker in docker) or NA [default: packrat]",
      type = enum("engine", c("packrat", "liftr")),
      prefix = "--engine",
      cmdInclude = TRUE
    )
  ),
  outputs = list(
    output(
      id = "shinyapp",
      description = "compressed shiny app folder",
      type = "file...",
      glob = "*.tar"
    ),
    output(
      id = "html_report",
      description = "report rendered as html from knitr template",
      type = "file...",
      glob = "*.html"
    ),
    output(
      id = "pdf_report",
      description = "report rendered as pdf from knitr template",
      type = "file...",
      glob = "*.pdf"
    )
  )
)

fl <- "reporttool.json"
write(rbx$toJSON(pretty = TRUE), fl)