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r.ts
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import { filepaths } from "@fig/autocomplete-generators";
const compileFiles = filepaths({
extensions: ["c", "cc", "cpp", "m", "mm", "M", "f", "f90", "f95"],
});
const rPackages = filepaths({
extensions: ["tar", "tar.gz", "tzr.bz2", "tar.xz", "tgz"],
});
const RDocGenerator = filepaths({
extensions: ["Rd"],
editFileSuggestions: { priority: 76 },
});
const RFileGenerator = filepaths({
extensions: ["R"],
editFileSuggestions: { priority: 76 },
});
const RLibGenerator: Fig.Generator = {
script: ["Rscript", "-e", ".libPaths()"],
postProcess: (output) => {
if (output.includes("not found")) {
return [];
}
return output.split("\n").map((lib) => {
return {
name: lib.replace(/\d+/, "").replace("[]", "").trim(),
description: "Library",
};
});
},
};
const helpAndVersionOptions: Fig.Option[] = [
{
name: ["--help", "-h"],
description: "Print help message and exit",
icon: "❔",
},
{
name: ["--version", "-v"],
description: "Print version info and exit",
icon: "📣",
},
];
const cleanAndPrecleanOptions: Fig.Option[] = [
{
name: ["--clean", "-c"],
description: "Remove files created during compilation",
},
{
name: "--preclean",
description: "Remove files created during a previous run",
},
];
const completionSpec: Fig.Spec = {
name: "R",
description: "Start R or invoke an R tool using CMD",
icon: "https://www.r-project.org/favicon-32x32.png",
subcommands: [
{
name: "RHOME",
description: "Print path to R home directory and exit",
},
{
name: "CMD",
description: "Invoke an R tool",
subcommands: [
{
name: "BATCH",
description: "Batch Execution of R",
options: helpAndVersionOptions.concat([
{
name: "--no-timing",
description: "Do not report the timings",
},
{
name: "--",
description: "End processing of options",
},
]),
args: [
{
name: "infile",
description: "A file with R code to be executed",
generators: RFileGenerator,
},
{
name: "outfile",
description:
"A file to which to write output. If not given, the name used is that of infile, with a possible .R extension stripped, and .Rout appended",
},
],
},
{
name: "COMPILE",
description:
"Compile files for use with R (not available on Windows)",
options: helpAndVersionOptions,
args: {
name: "files",
description: "Source files to be compiled",
isVariadic: true,
generators: compileFiles,
},
},
{
name: "SHLIB",
description:
"Compile the given source files and then link all specified object files",
options: helpAndVersionOptions
.concat(cleanAndPrecleanOptions)
.concat([
{
name: ["--output", "-o"],
description: "Name for the built library",
requiresSeparator: true,
args: {
name: "LIB",
description: "Full name for the built library",
},
},
{
name: ["--dry-run", "-n"],
description: "Dry run; shows commands that would be used",
},
{
name: "--use-LTO",
description: "Use Link-Time Optimization",
exclusiveOn: ["--no-use-LTO"],
},
{
name: "--no-use-LTO",
description: "Do not use Link-Time Optimization",
exclusiveOn: ["--use-LTO"],
},
{
name: ["--debug", "-d"],
description: "Build a debug DLL (Windows only)",
icon: "🪲",
},
]),
args: {
name: "files",
description:
"The object files to be included in the shared object/DLL",
isVariadic: true,
generators: compileFiles,
},
},
{
name: "INSTALL",
description: "Utility for installing add-on packages",
options: helpAndVersionOptions
.concat(cleanAndPrecleanOptions)
.concat([
{
name: ["--debug", "-d"],
description: "Turn on debugging messages",
icon: "🪲",
},
{
name: ["--library", "-l"],
description: "Install packages to library tree LIB",
requiresSeparator: true,
args: {
name: "LIB",
description: "Path to the R library tree to install to",
generators: RLibGenerator,
},
},
{
name: "--no-configure",
description: "Do not use the package's configure script",
},
{
name: "--no-docs",
description: "Do not install HTML, LaTeX or examples help",
},
{
name: "--html",
description: "Build HTML help",
exclusiveOn: ["--no-html"],
},
{
name: "--no-html",
description: "Do not build HTML help",
exclusiveOn: ["--html"],
},
{
name: "--latex",
description: "Install LaTeX help",
},
{
name: "--example",
description: "Install R code for help examples",
},
{
name: "--fake",
description: "Do minimal install for testing purposes",
},
{
name: "--no-lock",
description:
"Install on top of any existing installation without using a lock directory",
exclusiveOn: ["--lock", "--pkglock"],
},
{
name: "--lock",
description: "Use a per-library lock directory (default)",
exclusiveOn: ["--no-lock", "--pkglock"],
},
{
name: "--pkglock",
description:
"Use a per-package lock directory (default for a single package)",
exclusiveOn: ["--no-lock", "--lock"],
},
{
name: "--build",
description: "Build binaries of the installed package(s)",
icon: "🛠",
},
{
name: "--install-tests",
description: "Install package-specific tests (if any)",
},
{
name: "--no-R",
description: "Suppress installation of the package R code",
},
{
name: "--no-libs",
description: "Suppress installation of the package libs",
},
{
name: "--no-data",
description: "Suppress installation of the package data",
},
{
name: "--no-help",
description: "Suppress installation of the package help",
},
{
name: "--no-demo",
description: "Suppress installation of the package demo",
},
{
name: "--no-exec",
description: "Suppress installation of the 'exec' directory",
},
{
name: "--no-inst",
description: "Suppress installation of the 'inst' directory",
},
{
name: "--no-multiarch",
description: "Build only the main architecture",
},
{
name: "--libs-only",
description: "Only install the libs directory",
},
{
name: "--data-compress",
description: "Compression to be used for lazy-loading of data",
requiresSeparator: true,
args: {
name: "compression",
description: "Compression method",
default: "gzip",
suggestions: ["gzip", "none", "bzip2", "xz"],
},
},
{
name: "--resave-data",
description: "Re-save data files as compactly as possible",
},
{
name: "--compact-docs",
description: "Re-compress PDF files under inst/doc",
},
{
name: "--with-keep.source",
description: "'keep.source' for R code",
exclusiveOn: ["--without-keep.source"],
},
{
name: "--without-keep.source",
description: "Do not use 'keep.source' for R code",
exclusiveOn: ["--with-keep.source"],
},
{
name: "--with-keep.parse.data",
description: "Use 'keep.parse.data' for R code",
exclusiveOn: ["--without-keep.parse.data"],
},
{
name: "--without-keep.parse.data",
description: "Do not 'keep.parse.data' for R code",
exclusiveOn: ["--with-keep.parse.data"],
},
{
name: "--byte-compile",
description: "Byte-compile R code",
exclusiveOn: ["--no-byte-compile"],
},
{
name: "--no-byte-compile",
description: "Do not byte-compile R code",
exclusiveOn: ["--byte-compile"],
},
{
name: "--staged-install",
description:
"Install to a temporary directory and then move to the target directory (default)",
exclusiveOn: ["--staged-install"],
},
{
name: "--no-staged-install",
description: "Install directly to the target directory",
exclusiveOn: ["--no-staged-install"],
},
{
name: "--no-test-load",
description: "Skip test of loading installed package",
},
{
name: "--no-clean-on-error",
description: "Do not remove installed package on error",
},
{
name: "--merge-multiarch",
description:
"Multi-arch by merging (from a single tarball only)",
},
{
name: "--use-vanilla",
description: "Do not read any Renviron or Rprofile files",
},
{
name: "--use-LTO",
description: "Use Link-Time Optimization",
exclusiveOn: ["--no-use-LTO"],
},
{
name: "--no-use-LTO",
description: "Do not use Link-Time Optimization",
exclusiveOn: ["--use-LTO"],
},
{
name: "--configure-args",
description: "Set arguments for the configure scripts",
requiresSeparator: true,
args: {
name: "ARGS",
description: "Arguments for the configure script",
},
},
{
name: "--configure-vars",
description: "Set variables for the configure scripts",
requiresSeparator: true,
args: {
name: "ARGS",
description: "Variables for the configure scripts",
},
},
{
name: "--strip",
description: "Strip shared object(s) (Unix only)",
},
{
name: "--strip-lib",
description:
"Strip static/dynamic libraries under 'lib/' (Unix only)",
},
{
name: "--dsym",
description: "Generate dSYM directory (macOS only)",
},
{
name: "--built-timestamp",
description:
"Set timestamp for 'Built' entry in DESCRIPTION (Unix only)",
requiresSeparator: true,
args: {
name: "STAMP",
description: "A timestamp for the build (Unix only)",
},
},
{
name: "--force-biarch",
description:
"Attempt to build both architectures (Windows only)",
},
{
name: "--compile-both",
description:
"Compile both architectures on 32-bit Windows (Windows only)",
},
]),
args: {
name: "packages",
description: "Directories with the package sources",
generators: {
template: "folders",
},
},
},
{
name: "REMOVE",
description: "Remove add-on packages",
icon: "🗑",
args: {
name: "packages",
description: "Packages to remove",
isDangerous: true,
isVariadic: true,
},
options: helpAndVersionOptions.concat([
{
name: ["--library", "-l"],
description: "The library tree to remove from",
requiresSeparator: true,
args: {
name: "LIB",
description: "Library tree",
generators: RLibGenerator,
},
},
]),
},
{
name: "build",
description: "Build R packages from package sources",
icon: "🛠",
args: {
name: "pakgdirs",
description: "Package directories",
isVariadic: true,
generators: {
template: "folders",
},
},
options: helpAndVersionOptions.concat([
{
name: "--force",
description: "Force removal of INDEX file",
isDangerous: true,
},
{
name: "--keep-empty-dirs",
description: "Do not remove empty dirs",
},
{
name: "--no-build-vignettes",
description: "Do not (re)build package vignettes",
},
{
name: "--no-manual",
description: "Do not build the PDF manual",
},
{
name: "--resave-data",
description: "Re-save data files as compactly as possible",
requiresSeparator: true,
args: {
name: "Compression method",
isOptional: true,
default: "best",
suggestions: ["best", "gzip", "no"],
},
exclusiveOn: ["--no-resave-data"],
},
{
name: "--no-resave-data",
description: "Do not save data",
exclusiveOn: ["--resave-data"],
},
{
name: "--compact-vignettes",
description: "Try to compact PDF files under 'inst/doc'",
requiresSeparator: true,
args: {
name: "Compression method",
isOptional: true,
default: "no",
suggestions: ["no", "qpdf", "gs", "gs+qpdf", "both"],
},
},
{
name: "--compression",
description: "Type of compression to be used on tarball",
requiresSeparator: true,
args: {
name: "Compression method",
isOptional: true,
default: "gzip",
suggestions: ["gzip", "none", "bzip2", "xz"],
},
},
{
name: "--md5",
description: "Add MD5 sums",
},
{
name: "--log",
description:
"Log to file 'pkg-00build.log' when processing the pkgdir with basename 'pkg'",
},
]),
},
{
name: "check",
description: "Check R packages from package sources",
icon: "✅",
options: helpAndVersionOptions.concat([
{
name: ["--library", "-lib"],
description: "Library used for test installation of packages",
args: {
name: "LIB",
description: "Library tree",
default: ".",
generators: {
template: "folders",
},
},
},
{
name: ["--output", "-o"],
description: "Directory for output",
requiresSeparator: true,
args: {
name: "directory",
description: "Directory for output",
default: ".",
generators: {
template: "folders",
},
},
},
{
name: "--no-clean",
description: "Do not clean 'outdir' before using it",
},
{
name: "--no-codoc",
description: "Do not check for code/documentation mismatches",
},
{
name: "--no-examples",
description: "Do not run the examples in the Rd files",
},
{
name: "--no-install",
description: "Skip installation and associated tests",
},
{
name: "--no-tests",
description: "Do not run code in 'tests' subdirectory",
},
{
name: "--no-manual",
description: "Do not produce the PDF manual",
},
{
name: "--no-vignettes",
description: "Do not run R code in vignettes nor build outputs",
},
{
name: "--no-build-vignettes",
description: "Do not build vignette outputs",
},
{
name: "--ignore-vignettes",
description: "Skip all tests on vignettes",
},
{
name: "--run-dontrun",
description: "Do run `dontrun{}` sections in the Rd files",
},
{
name: "--run-donttest",
description: "Do run `donttest{}` sections in the Rd files",
},
{
name: "--use-gct",
description: "Use `gctorture(TRUE)` when running examples, tests",
},
{
name: "--use-valgrind",
description:
"Use `valgrind` when running examples, tests, vignettes",
},
{
name: "--timings",
description: "Record timings for examples",
icon: "⏱",
},
{
name: "--install-args",
description: "Command-line args to be passed to INSTALL",
requiresSeparator: true,
args: {
name: "args",
description: "Command-line args to be passed to INSTALL",
},
},
{
name: "--test-dir",
description: "Look in this subdirectory for test scripts",
requiresSeparator: true,
args: {
name: "directory",
description: "Directory with the tests directory",
default: "tests",
generators: {
template: "folders",
},
},
},
{
name: "--no-stop-on-test-error",
description: "Do not stop running tests after first error",
},
{
name: "--check-subdirs",
description: "Run checks on the package subdirectories",
requiresSeparator: true,
args: {
name: "yes-or-no",
description: "Run checks on subdirectories?",
default: "default",
suggestions: ["default", "yes", "no"],
},
},
{
name: "--as-cran",
description:
"Select customizations similar to those used by CRAN",
icon: "https://www.r-project.org/favicon-32x32.png",
},
{
name: "--extra-arch",
description:
"Do only runtime tests needed for an additional sub-architecture",
},
{
name: "--multiarch",
description: "Do runtime tests on all installed sub-archs",
exclusiveOn: ["--no-multiarch"],
},
{
name: "--no-multiarch",
description: "Do runtime tests only on the main sub-architecture",
exclusiveOn: ["--multiarch"],
},
{
name: "--force-multiarch",
description:
"Run tests on all sub-archs even for packages with no compiled code",
exclusiveOn: ["--no-multiarch"],
},
]),
args: {
name: "packages",
description: "Packages to check",
isVariadic: true,
generators: rPackages,
},
},
{
name: "LINK",
description: "Perform the specified linkcmd",
icon: "🔗",
options: helpAndVersionOptions,
args: {
name: "linkcmd",
description: "Command for linkcmd",
},
},
{
name: "rprof",
description: "Post-process profiling information from `Rprof()`",
icon: "⏱",
options: helpAndVersionOptions.concat([
{ name: "--lines", description: "Print line information" },
{ name: "--total", description: "Print only by total" },
{ name: "--self", description: "Print only by self" },
{ name: "--linesonly", description: "Print only by line" },
{
name: "--min%total",
description: "Minimum % to print for 'by total'",
requiresSeparator: true,
args: {
name: "min % total",
description: "Minimum % to print for 'by total'",
suggestions: ["1", "10", "50"],
},
},
{
name: "--min%self",
description: "Minimum % to print for 'by self'",
requiresSeparator: true,
args: {
name: "min % self",
description: "Minimum % to print for 'by self'",
suggestions: ["1", "10", "50"],
},
},
]),
args: {
name: "Rprof output file",
description: "File generated by `Rprof()`",
isOptional: true,
default: "Rprof.out",
generators: { template: "filepaths" },
},
},
{
name: "Rdconv",
description: "Convert R documentation to other formats",
options: helpAndVersionOptions.concat([
{
name: ["--type", "-t"],
description: "Output format type",
requiresSeparator: true,
isRequired: true,
args: {
name: "type",
description: "Output format type",
suggestions: ["txt", "html", "latex", "example"],
},
},
{
name: "--encoding",
description: "Encoding of the output",
requiresSeparator: true,
args: {
name: "enc",
description: "Output encoding",
default: "UTF-8",
},
},
{
name: "--package",
description: "Package name",
requiresSeparator: true,
args: {
name: "package",
description: "Package name",
},
},
{
name: ["--output", "-o"],
description: "The output file",
requiresSeparator: true,
args: {
name: "output file",
description:
"Name of the output file, '\"\"' to use the input file without '.Rd'",
default: '""',
suggestions: ['""', "-"],
},
},
{
name: ["--os", "--OS"],
description: "Set name of OS ('unix' or 'windows')",
requiresSeparator: true,
args: {
name: "OS",
description: "Name of the OS",
suggestions: ["unix", "windows"],
},
},
{
name: "--RdMacros",
description: "Packages from which to get Rd macros",
requiresSeparator: true,
args: {
name: "package list",
description: "List of packages",
},
},
]),
args: {
name: "file",
description: "R doc file to convert",
generators: RDocGenerator,
},
},
{
name: "Rd2pdf",
description: "Generate PDF output from R documentation files",
options: helpAndVersionOptions.concat([
{ name: "--batch", description: "No interaction between files" },
{
name: "--no-clean",
description: "Do not remove created temporary files",
},
{
name: "--no-preview",
description: "Do not preview generated PDF file",
},
{
name: "--encoding",
description: "Set the default input encoding",
requiresSeparator: true,
args: {
name: "enc",
description: "Output encoding",
default: "UTF-8",
},
},
{
name: "--outputEncoding",
description: "Set the default output encoding",
requiresSeparator: true,
args: {
name: "enc",
description: "Output encoding",
default: "UTF-8",
},
},
{
name: ["--os", "--OS"],
description: "Set name of OS ('unix' or 'windows')",
requiresSeparator: true,
args: {
name: "OS",
description: "Name of the OS",
suggestions: ["unix", "windows"],
},
},
{
name: ["--output", "-o"],
description: "Write output to a file",
requiresSeparator: true,
args: {
name: "file",
description: "Name of output file",
},
},
{
name: "--force",
description: "Overwrite output file if it exists",
isDangerous: true,
},
{
name: "--title",
description: "Set the title of the document",
requiresSeparator: true,
args: {
name: "title",
description: "Title of the document",
},
},
{
name: "--no-index",
description: "Do not index output",
},
{
name: "--no-description",
description: "Do not typeset the description of a package",
},
{
name: "--internals",
description: "Typeset 'internal' documentation (usually skipped)",
},
{
name: "--build_dir",
description: "Set the working directory",
requiresSeparator: true,
args: {
name: "working dir",
description: "Working directory for the build",
generators: {
template: "folders",
},
},
},
{
name: "--RdMacros",
description: "Packages from which to get Rd macros",
requiresSeparator: true,
args: {
name: "package list",
description: "List of packages",
},
},
]),
args: {
name: "files or pkgs",
description:
"Rd files, or a directory with the sources of a pkg, or an installed pkg",
generators: {
template: "folders",
},
},
},
{
name: "Rd2txt",
description: "Convert R documentation to text",
options: helpAndVersionOptions.concat([
{
name: ["--type", "-t"],
description: "Output format type",
requiresSeparator: true,
isRequired: true,
args: {
name: "type",
description: "Output format type",
suggestions: ["txt", "html", "latex", "example"],
default: "txt",
},
},
{
name: "--encoding",
description: "Encoding of the output",
requiresSeparator: true,
args: {
name: "enc",
description: "Output encoding",
default: "UTF-8",
},
},
{
name: "--package",
description: "Package name",
icon: "📦",
requiresSeparator: true,
args: {
name: "package",
description: "Package name",
},
},
{
name: ["--output", "-o"],
description: "The output file",
requiresSeparator: true,
args: {
name: "output file",
description:
"Name of the output file, '\"\"' to use the input file without '.Rd'",
default: '""',
suggestions: ['""', "-"],
},
},
{
name: ["--os", "--OS"],
description: "Set name of OS ('unix' or 'windows')",
requiresSeparator: true,
args: {
name: "OS",
description: "Name of the OS",
suggestions: ["unix", "windows"],
},
},
{
name: "--RdMacros",
description: "Packages from which to get Rd macros",
requiresSeparator: true,
args: {
name: "package list",
description: "List of packages",
},
},
]),
args: {
name: "file",
description: "R doc file to convert",
generators: RDocGenerator,
},
},
{
name: "Stangle",
description: "A front-end for Stangle and other vignette engines",
options: helpAndVersionOptions.concat([
{
name: "--engine",
description: "Use named vignette engine",
requiresSeparator: true,
args: {
name: "pkg::engine",
description: "Vignette engine",
suggestions: ["Stangle", "knitr::knit", "utils::Sweave"],
default: "Stangle",
},
},
{
name: "--encoding",
description: "Set the encoding for file",
requiresSeparator: true,
args: {