Title:	'ShinyItemAnalysis' Modules Development Toolkit
Version:	0.1.3
Description:	A comprehensive suite of functions designed for constructing and managing 'ShinyItemAnalysis' modules, supplemented with detailed guides, ready-to-use templates, linters, and tests. This package allows developers to seamlessly create and integrate one or more modules into their existing packages or to start a new module project from scratch.
License:	GPL (≥ 3)
URL:	https://applstat.github.io/SIAtools/
Depends:	R (≥ 3.6.0)
Imports:	cli, desc, fs, magrittr, purrr, rlang, shiny, usethis, yaml
Suggests:	glue, knitr, lintr, pkgload, rmarkdown, roxygen2, rstudioapi, spelling, testthat (≥ 3.0.0), tibble, tidyr, withr, xml2
VignetteBuilder:	knitr
Config/testthat/edition:	3
Encoding:	UTF-8
Language:	en-US
RoxygenNote:	7.3.2
NeedsCompilation:	no
Packaged:	2025-06-09 15:00:25 UTC; netik
Author:	Jan Netik [cre, aut], Patricia Martinkova [aut]
Maintainer:	Jan Netik <netik@cs.cas.cz>
Repository:	CRAN
Date/Publication:	2025-06-09 15:20:02 UTC

SIAtools: 'ShinyItemAnalysis' Modules Development Toolkit

Description

A comprehensive suite of functions designed for constructing and managing 'ShinyItemAnalysis' modules, supplemented with detailed guides, ready-to-use templates, linters, and tests. This package allows developers to seamlessly create and integrate one or more modules into their existing packages or to start a new module project from scratch.

Author(s)

Maintainer: Jan Netik netik@cs.cas.cz (ORCID)

Authors:

• Patricia Martinkova martinkova@cs.cas.cz (ORCID)

See Also

Useful links:

• https://applstat.github.io/SIAtools/

Add a new SIA module to your package

Description

This is the workhorse of {SIAtools} package. The function checks if the package is properly configured for SIA modules and provides immediate fixes as needed. add_module() automatically puts a correct entry in SIA Modules Manifest of your package (which is created if not already present), and prepares .R file with the code template. Both files are automatically opened for you by default.

Usage

add_module(
  name = "new_module",
  title = NULL,
  category = NULL,
  open = TRUE,
  prefix = "sm_",
  proj = curr_proj()
)

Arguments

Value

No return value. Called for the side effects.

See Also

Other module management functions: get_modules(), preview_module(), remove_module()

Examples

## Not run: 
# add the module called "test" and edit the details later on in the YAML
add_module("test")

# specify the title and category at creation time
add_module("test", title = "Test module", category = "Validity")

## End(Not run)

Check if a package is identified as containing SIA modules

Description

Check if a package is identified as containing SIA modules

Usage

check_description(proj = curr_proj())

Arguments

Value

Side effects.

Create a new RStudio project prepared for SIA modules

Description

The function is designed to be used primarily by RStudio "New Project Wizard". Create a new project by navigating through File > New Project > New Directory > ShinyItemAnalysis Module Project. See RStudio User Guide for the details.

Usage

create_module_project(path, ..., open = TRUE)

Arguments

Value

No return value. Called for the side effect.

Examples

if (interactive()) {
  # create a new SIA module project in the parent of your working directory
  create_module_project("../my_new_module")
}

Get a current project path

Description

This is a thin wrapper around usethis::proj_get() that silences any messages.

Usage

curr_proj()

Value

The path to the current project.

See Also

Other helpers: default_shiny_io_functions, edit_rstudio_shortcuts(), list_categories(), open_sm_manifest(), print.sm_manifest(), sia_head_tag()

Examples

## Not run: 
curr_proj()

## End(Not run)

Default {shiny} input/output UI functions consulted by module_namespace_linter()

Description

A character vector of function names whose calls are inspected for ns() omission. Name of each element denotes the original package. Please refer to module_namespace_linter() for more details.

Usage

default_shiny_io_functions

Format

An object of class character of length 25.

Details

Following functions are covered:

• shiny::actionButton

• shiny::actionLink

• shiny::checkboxGroupInput

• shiny::checkboxInput

• shiny::dateInput

• shiny::dateRangeInput

• shiny::fileInput

• shiny::numericInput

• shiny::passwordInput

• shiny::radioButtons

• shiny::selectInput

• shiny::sliderInput

• shiny::textAreaInput

• shiny::textInput

• shiny::varSelectInput

• shiny::dataTableOutput

• shiny::tableOutput

• shiny::uiOutput

• shiny::htmlOutput

• shiny::verbatimTextOutput

• shiny::imageOutput

• shiny::textOutput

• shiny::plotOutput

• plotly::plotlyOutput

• DT::DTOutput

See Also

Other helpers: curr_proj(), edit_rstudio_shortcuts(), list_categories(), open_sm_manifest(), print.sm_manifest(), sia_head_tag()

Show RStudio Keyboard Shortcuts

Description

Shows a popup window with RStudio keyboard shortcuts. Applicable only in RStudio and in interactive R session.

Usage

edit_rstudio_shortcuts()

Details

You can quickly reach out solicited addin function by typing it in the Filter... box in the very top of the window. Then double click at the blank space just next to the addin function name and press down desired key or key combination. Apply the changes and from now on, just call the addin function with one keystroke. For more details, navigate to RStudio documentation.

Value

No return value. Called for side effect.

See Also

Other helpers: curr_proj(), default_shiny_io_functions, list_categories(), open_sm_manifest(), print.sm_manifest(), sia_head_tag()

Examples

if (interactive()) {
edit_rstudio_shortcuts()
}

Get the SIA Modules Manifest for the currently developed package

Description

Returns a list with all modules for the current package as described in its SIA Modules Manifest, which resides at ⁠/inst/sia/modules.yml⁠ and is generated with add_module() calls. Can be formatted as a tibble using the respective print method.

Usage

get_modules(proj = curr_proj())

Arguments

Value

A SIA Modules Manifest of class sm_manifest. Inherits from a list.

See Also

Other module management functions: add_module(), preview_module(), remove_module()

Examples

## Not run: 
get_modules()

## End(Not run)

Check the {shiny} module UI functions for ns() omission

Description

This is a simple wrapper of lintr::lint_package() call using only the module_namespace_linter() from {SIAtools}. See the linter documentation for more details.

Usage

lint_ns(path = curr_proj(), ...)

Arguments

Value

An object of class c("lints", "list"), each element of which is a "list" object.

See Also

Other linter-related functions: module_namespace_linter()

Examples

## Not run: 
lint_ns()

## End(Not run)

List the available SIA module categories

Description

Lists all available categories a SIA module can be placed in. SIA app will place the module with illegal category under "Modules".

Usage

list_categories()

Value

A character vector.

See Also

Other helpers: curr_proj(), default_shiny_io_functions, edit_rstudio_shortcuts(), open_sm_manifest(), print.sm_manifest(), sia_head_tag()

Examples

list_categories()

Require usage of ns() in inputId and outputId arguments of UI functions in {shiny} modules

Description

A custom linter to be used by {lintr} package. Checks the functions in a module's UI part for any missing ns() calls. These are often omitted when working with the plain {shiny} or SIA modules. More details follows below.

Usage

module_namespace_linter(
  io_funs = default_shiny_io_functions,
  io_args = c("inputId", "outputId"),
  ns_funs = c("ns", "NS")
)

Arguments

Details

How to use this linter

The easiest way is to call lint_ns() which is essentially a wrapper around:

lintr::lint_package(linters = module_namespace_linter())

Both calls use our linter for the whole package. However, note that only module_namespace_linter is considered. Using this custom linter with the native ones is somewhat complicated, but not impossible. To the best of our knowledge, the only place where the {lintr} documentation mentions the actual usage of external linters, is in linters_with_tags() help page. According to that, you can pass the following call to linters argument in any supported ⁠lintr::lint_*⁠ function:

lintr::linters_with_tags(
 tags = NULL, packages = c("lintr", "SIAtools")
)

That should select all linters available in both packages.

It is also possible to set up a configuration file that enables you to shorten calls to {lintr} functions, use RStudio Addins to lint an active file, or even apply linters during continuous integration workflows, e.g., in GitHub Actions or in Travis. To opt for that, create .lintr file at your package's root and fill in the following line:

linters: linters_with_tags(tags = NULL, packages = "SIAtools")

Then, you can use the provided addins or call lintr::lint_package() to get your modules checked.

What the linter does

By default, the linter looks for any inputId or outputId arguments of {shiny}'s UI functions (such as numericInput or plotOutput, respectively), and tests if the values assigned to the arguments are all "namespaced", i.e., wrapped in ns() function. This is crucial for inputs and outputs in the UI portion of a module to match their counterparts in the server logic chunk.

Only {shiny} UI calls that are inside of a tagList in a function ("lambda" shorthand, ⁠\( )⁠, applies as well) are inspected. This is because we don't want to cause false alarms for any "ordinary" {shiny} apps that aren't modules. All UI portions of modules are usually defined as functions, and all input/output UI functions are inside a tagList, so we opted for the this strategy to minimalize false positive matches outside {shiny} modules.

We look for any inputId or outputId arguments that are named as such. On top of that, the ns() omission is detected even if you call the function without named arguments that would be evaluated as input or output IDs. However, if you use partial matching (numericInput(inp = "input")), the actual input won't get linted, even though it should, as it is eventually evaluated as inputId. The same applies for arguments defined outside the call and passed as a variable, e.g., ⁠inp <- "input"; numericInput(inputId = inp)⁠. That is tricky to catch in a static code analysis, which is employed in this linter.

Value

A linter closure. To be used by {lintr} only. See the first example below.

See Also

linters for a complete list of linters available in lintr.

Other linter-related functions: lint_ns()

Examples

# will produce lints
lintr::lint(
  text =
    "module_ui <- function(id, imports, ...) {
      tagList(
        numericInput(inputId = \"input_id_without_ns\", ...)
      )
    }",
  linter = module_namespace_linter()
)

# is OK
lintr::lint(
  text =
    "module_ui <- function(id, imports, ...) {
      tagList(
        numericInput(inputId = ns(\"input_id_with_ns\"), ...)
      )
    }",
  linter = module_namespace_linter()
)

Open SIA Modules Manifest for Editing

Description

Open SIA Modules Manifest for Editing

Usage

open_sm_manifest(proj = curr_proj())

Arguments

Value

character, a path to SIA Module Manifest (invisibly).

See Also

Other helpers: curr_proj(), default_shiny_io_functions, edit_rstudio_shortcuts(), list_categories(), print.sm_manifest(), sia_head_tag()

Examples

## Not run: 
open_sm_manifest()

## End(Not run)

Preview a module

Description

Previews a SIA module in a standalone development environment. See the details below.

Usage

preview_module(
  module_id = NULL,
  ui_imports = NULL,
  server_imports = NULL,
  ui_elements = sia_head_tag(),
  save_and_document = TRUE,
  load = TRUE,
  proj = curr_proj(),
  ...
)

Arguments

Details

The function takes module's function bindings and puts (or evaluates) them inside a bare bone shiny::shinyApp(). By default, a customized head tag is injected in order to mimic the "environment" of full {ShinyItemAnalysis} app. See sia_head_tag() for more details. Besides, a onSessionEnded hook is set to call shiny::stopApp() after the client disconnects, so the "process" is automatically quit after you close the preview in your browser or RStudio viewer.

In order to use the function bindings, preview_module() attempts to load your package without the actual installation by default. Note that you have to install the package as usual for {ShinyItemAnalysis} to detect your modules.

Using objects from the {ShinyItemAnalysis} app

Note that this "emulated" preview environment is really meant to test the basic UI layout and functionality and is not able to receive any object from {ShinyItemAnalysis} app. However, you can pass any object like {ShinyItemAnalysis} does to server_imports argument manually. For further details and examples, please refer to vignette("imports", "SIAtools") vignette.

Value

Shiny app object of class shiny.appobj.

See Also

Other module management functions: add_module(), get_modules(), remove_module()

Examples

if (interactive()) {
  preview_module()
}

Print a SIA Modules Manifest

Description

Prints out the SIA Modules Manifest obtained through get_modules(). By default, a plain YAML content is returned, but you can also get a formatted output in a tibble, which is suitable for packages with large number of SIA modules.

Usage

## S3 method for class 'sm_manifest'
print(x, ..., as_tibble = FALSE)

Arguments

Value

Called for side effects by default. Returns a tibble if as_tibble argument is set to TRUE.

See Also

Other helpers: curr_proj(), default_shiny_io_functions, edit_rstudio_shortcuts(), list_categories(), open_sm_manifest(), sia_head_tag()

Remove a module

Description

Removes the given module from the SIA Module Manifest and deletes the respective .R file.

Usage

remove_module(module_id = NULL, proj = curr_proj())

Arguments

Value

No return value. Called for the side effect.

See Also

Other module management functions: add_module(), get_modules(), preview_module()

Examples

## Not run: 
remove_module()

## End(Not run)

Save all opened files and document the package in development

Description

Save all opened files and document the package in development

Usage

save_and_document_fun(proj = curr_proj())

Arguments

Value

No return value. Called for side effects.

Core HTML head tag from ShinyItemAnalysis

Description

This function is intended to be used for SIA module preview only, which is done by default in preview_module(). It provides a HTML head tag with a math rendering facility provided by the \KaTeX library, and some CSS rules to format tables. If printed in the console, expect nothing to be shown.

Usage

sia_head_tag()

Value

HTML head tag of class shiny.tag.

See Also

Other helpers: curr_proj(), default_shiny_io_functions, edit_rstudio_shortcuts(), list_categories(), open_sm_manifest(), print.sm_manifest()

List SIA module packages available on the official repository

Description

List SIA module packages available on the official repository

Usage

sm_list_available(repo = default_repo())

Arguments

Do a welcome routine in the fresh SIA module project

Description

Do a welcome routine in the fresh SIA module project

Usage

welcome_routine()