Interface

Generated from 'wiki-interface.ts' on 2026-10-27, 20:45:07 UTC (v2.16.7, R v4.5.0), do not edit directly.

Although far from being as detailed as the in-depth explanation of flowR, this wiki page explains how to interface with flowR in more detail. In general, command line arguments and other options provide short descriptions on hover over.

💻 Using the REPL
⚙️ Configuring FlowR
⚒️ Writing Code
💬 Communicating with the Server

💻 Using the REPL

Note

To execute arbitrary R commands with a repl request, flowR has to be started explicitly with --r-session-access. Please be aware that this introduces a security risk and note that this relies on the r-shell engine .

Although primarily meant for users to explore, there is nothing which forbids calling flowR as a subprocess to use standard-in, -output, and -error for communication (although you can access the REPL using the server as well, with the REPL Request message).

The read-eval-print loop (REPL) works relatively simple. You can submit an expression (using Enter), which is interpreted as an R expression by default but interpreted as a command if it starts with a colon (:). The best command to get started with the REPL is :help. Besides, you can leave the REPL either with the command :quit or by pressing Ctrl+C twice. When writing a command, you may press Tab to get a list of completions, if available. Multiple commands can be entered in a single line by separating them with a semicolon (;), e.g. :parse "x<-2"; :df*. If a command is given without R code, the REPL will re-use R code given in a previous command. The prior example will hence return first the parsed AST of the program and then the dataflow graph for "x <- 2".

Note

If you develop flowR, you may want to launch the repl using the npm run main-dev command, this way, you get a non-minified version of flowR with debug information and hot-reloading of source files.

Available Commands

We currently offer the following commands (this with a [*] suffix are available with and without the star):

Command	Description
:quit	End the repl (aliases: :q, :exit)
:execute	Execute the given code as R code. This requires the `--r-session-access` flag to be set and requires the r-shell engine. (aliases: :e, :r)
*:controlflow[]**	Get mermaid code for the control-flow graph of R code (star: Returns the URL to mermaid.live) (aliases: :cfg, :cf)
*:controlflowbb[]**	Get mermaid code for the control-flow graph with basic blocks (star: Returns the URL to mermaid.live) (aliases: :cfgb, :cfb)
*:dataflow[]**	Get mermaid code for the dataflow graph (star: Returns the URL to mermaid.live) (aliases: :d, :df)
*:normalize[]**	Get mermaid code for the normalized AST of R code (star: Returns the URL to mermaid.live) (alias: :n)
*:dataflowsimple[]**	Get mermaid code for the simplified dataflow graph (star: Returns the URL to mermaid.live) (aliases: :ds, :dfs)
:signature	Inspect and extend the signature database: `query` (identical to :query @signature), `info <name>` for where a function comes from (identical to :query @function-info), `add <path>` to mount another database/source, `download` to fetch the full-history database. (alias: :sig)
:dataflowsilent	Just calculates the DFG, but only prints summary info (aliases: :d#, :df#)
:parse	Prints ASCII Art of the parsed, unmodified AST (alias: :p)
:version	Prints the version of flowR as well as the current version of R
*:query[]**	Query the given R code (use 'help' for more information) (star: Similar to query, but returns the output in json format.)
:dataflowascii	Returns an ASCII representation of the dataflow graph (alias: :df!)
:normalize#	Returns summarization stats for the normalized AST (alias: :n#)
:help	Show help information (aliases: :h, :?)

Tip

As indicated by the examples before, all REPL commands that operate on code keep track of the state. Hence, if you run a command like :dataflow* without providing R code, the REPL will re-use the R code provided in a previous command. Likewise, doing this will benefit from incrementality! If you request the dataflow graph with :df* x <- 2 * y and then want to see the parsed AST with :parse, the REPL will re-use previously obtained information and not re-parse the code again.

Generally, many commands offer shortcut versions in the REPL. Many queries, for example, offer a shortened format (see the example below). Of special note, the Config Query can be used to also modify the currently active configuration of flowR within the REPL (see the wiki page for more information).

Example: Retrieving the Dataflow Graph

To retrieve a URL to the mermaid diagram of the dataflow of a given expression, use :dataflow* (or :dataflow to get the mermaid code in the cli):

$ docker run -it --rm eagleoutice/flowr # or npm run flowr 
flowR repl v2.16.7, R grammar v14 (tree-sitter engine)
R> :dataflow* y <- 1 + x

Output

https://mermaid.live/view#base64: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

Retrieve the dataflow graph of the expression y <- 1 + x. It looks like this:

flowchart LR
    1{{"`*#91;RNumber#93;* **1**
      *1.6* (**id: 1**)`"}}
    2(["`*#91;RSymbol#93;* **x**
      *1.10* (**id: 2**)`"])
    3[["`*#91;RBinaryOp#93;* base#58;#58;**#43;**
      *1.6-10* (**id: 3**)
    arg: (1, 2)`"]]
    built-in:_43_["`Built-In:
#43;`"]
    style built-in:_43_ stroke:gray,fill:gray,stroke-width:2px,opacity:.8;
    0["`*#91;RSymbol#93;* **y**
      *1.1* (**id: 0**, v: 3)`"]
    4[["`*#91;RBinaryOp#93;* base#58;#58;**#60;#45;**
      *1.1-10* (**id: 4**)
    arg: (0, 3)`"]]
    built-in:_60_-["`Built-In:
#60;#45;`"]
    style built-in:_60_- stroke:gray,fill:gray,stroke-width:2px,opacity:.8;
    1 -.->|"flow"| 2
    linkStyle 0 stroke:gray,color:gray;
    2 -.->|"flow"| 3
    linkStyle 1 stroke:gray,color:gray;
    3 -->|"reads, arg"| 1
    3 -->|"reads, arg"| 2
    3 -.->|"flow"| 0
    linkStyle 4 stroke:gray,color:gray;
    3 -.->|"reads, calls"| built-in:_43_
    linkStyle 5 stroke:gray;
    0 -->|"defined-by, flow"| 4
    0 -->|"defined-by"| 3
    4 -->|"reads, arg"| 3
    4 -->|"returns, arg"| 0
    4 -.->|"reads, calls"| built-in:_60_-
    linkStyle 10 stroke:gray;

R Code of the Dataflow Graph

The analysis ran (parse and normalize with the tree-sitter engine) in the generation environment. No signature database is mounted, so library() attaches no exports (base-R names are still qualified, e.g., stats::acf). We encountered no unknown side effects during the analysis.

y <- 1 + x

For small graphs like this, :dataflowascii also provides an ASCII representation directly in the REPL:

$ docker run -it --rm eagleoutice/flowr # or npm run flowr 
flowR repl v2.16.7, R grammar v14 (tree-sitter engine)
R> :df! y <- 1 + x

Output

                        v<0>v
 c<4>c──────────────────| y |
 |<- |     ┌────────────v---v
 c---c     │
    │   c<3>c   0<1>0
    └───| + |───| 1 |───u<2>u
        c---c   0---0   | x |
           └────────────u---u
Edges:
3 -> 1: reads, arg          3 -> 2: reads, arg
3 -> 0: flows-to            1 -> 2: flows-to
2 -> 3: flows-to            4 -> 3: reads, arg
4 -> 0: returns, arg        0 -> 4: defined-by, flows-to
0 -> 3: defined-by

Retrieve the dataflow graph of the expression y <- 1 + x as ASCII art.

For the slicing with :slicer, you have access to the same magic comments as with the slice request. Pass --inline to splice resolvable source() calls into the reconstruction so the slice is a single self-contained R text (the same as the static slice query's inlineSources flag). See --help for more flags!

Example: Interfacing with the File System

Many commands that allow for an R-expression (like :dataflow*) allow for a file as well if the argument starts with file://. If you are working from the root directory of the flowR repository, the following gives you the parsed AST of the example file using the :parse command:

Watch mode: Replace file:// with watch:// to enter watch mode. flowR runs the command immediately and then re-runs it every time the file (or any file inside the folder) changes. Enter any other command to leave watch mode. For example: :df watch://analysis.R

$ docker run -it --rm eagleoutice/flowr # or npm run flowr 
flowR repl v2.16.7, R grammar v14 (tree-sitter engine)
R> :parse file://test/testfiles/example.R

Output

File: test/testfiles/example.R

program
├ binaryoperator
│ ├ identifier "sum" (1:1─4)
│ ├ <- "<-" (1:5─7)
│ ╰ float "0" (1:8─9)
├ binaryoperator
│ ├ identifier "product" (2:1─8)
│ ├ <- "<-" (2:9─11)
│ ╰ float "1" (2:12─13)
├ binaryoperator
│ ├ identifier "w" (3:1─2)
│ ├ <- "<-" (3:3─5)
│ ╰ float "7" (3:6─7)
├ binaryoperator
│ ├ identifier "N" (4:1─2)
│ ├ <- "<-" (4:3─5)
│ ╰ float "10" (4:6─8)
├ forstatement
│ ├ for "for" (6:1─4)
│ ├ ( "(" (6:5─6)
│ ├ identifier "i" (6:6─7)
│ ├ in "in" (6:8─10)
│ ├ binaryoperator
│ │ ├ float "1" (6:11─12)
│ │ ├ : ":" (6:12─13)
│ │ ╰ parenthesizedexpression
│ │   ├ ( "(" (6:13─14)
│ │   ├ binaryoperator
│ │   │ ├ identifier "N" (6:14─15)
│ │   │ ├ - "-" (6:15─16)
│ │   │ ╰ float "1" (6:16─17)
│ │   ╰ ) ")" (6:17─18)
│ ├ ) ")" (6:18─19)
│ ╰ bracedexpression
│   ├ { "{" (6:20─21)
│   ├ binaryoperator
│   │ ├ identifier "sum" (7:3─6)
│   │ ├ <- "<-" (7:7─9)
│   │ ╰ binaryoperator
│   │   ├ binaryoperator
│   │   │ ├ identifier "sum" (7:10─13)
│   │   │ ├ + "+" (7:14─15)
│   │   │ ╰ identifier "i" (7:16─17)
│   │   ├ + "+" (7:18─19)
│   │   ╰ identifier "w" (7:20─21)
│   ├ binaryoperator
│   │ ├ identifier "product" (8:3─10)
│   │ ├ <- "<-" (8:11─13)
│   │ ╰ binaryoperator
│   │   ├ identifier "product" (8:14─21)
│   │   ├  "" (8:22─23)
│   │   ╰ identifier "i" (8:24─25)
│   ╰ } "}" (9:1─2)
├ call
│ ├ identifier "cat" (11:1─4)
│ ╰ arguments
│   ├ ( "(" (11:4─5)
│   ├ argument
│   │ ╰ string
│   │   ├ stringopen "\"" (11:5─6)
│   │   ├ stringcontent "Sum:" (11:6─10)
│   │   ╰ stringclose "\"" (11:10─11)
│   ├ comma "," (11:11─12)
│   ├ argument
│   │ ╰ identifier "sum" (11:13─16)
│   ├ comma "," (11:16─17)
│   ├ argument
│   │ ╰ string
│   │   ├ stringopen "\"" (11:18─19)
│   │   ├ stringcontent
│   │   │ ╰ escapesequence "\\n" (11:19─21)
│   │   ╰ stringclose "\"" (11:21─22)
│   ╰ ) ")" (11:22─23)
╰ call
  ├ identifier "cat" (12:1─4)
  ╰ arguments
    ├ ( "(" (12:4─5)
    ├ argument
    │ ╰ string
    │   ├ stringopen "\"" (12:5─6)
    │   ├ stringcontent "Product:" (12:6─14)
    │   ╰ stringclose "\"" (12:14─15)
    ├ comma "," (12:15─16)
    ├ argument
    │ ╰ identifier "product" (12:17─24)
    ├ comma "," (12:24─25)
    ├ argument
    │ ╰ string
    │   ├ stringopen "\"" (12:26─27)
    │   ├ stringcontent
    │   │ ╰ escapesequence "\\n" (12:27─29)
    │   ╰ stringclose "\"" (12:29─30)
    ╰ ) ")" (12:30─31)

Retrieve the parsed AST of the example file.

File Content

sum <- 0
product <- 1
w <- 7
N <- 10

for (i in 1:(N-1)) {
  sum <- sum + i + w
  product <- product * i
}

cat("Sum:", sum, "\n")
cat("Product:", product, "\n")

As flowR directly transforms this AST the output focuses on being human-readable instead of being machine-readable.

Example: Run a Query

You can run any query supported by flowR using the :query command. For example, to obtain the shapes of all data frames in a given piece of code, you can run:

$ docker run -it --rm eagleoutice/flowr # or npm run flowr 
flowR repl v2.16.7, R grammar v14 (tree-sitter engine)
R> :query @absint df-shape "x <- data.frame(a = 1:10, b = 1:10)\ny <- x$a"

Output

Query: absint (2 ms)
   ╰ $12: (colnames: [{"a", "b"}, {}], cols: [2, 2], rows: [10, 10])
   ╰ $0: (colnames: [{"a", "b"}, {}], cols: [2, 2], rows: [10, 10])

Retrieve the shapes of all data frames in the given code.

To run the linter on a file, you can use (in this example, we just issue the dead-code linter on a small piece of code):

$ docker run -it --rm eagleoutice/flowr # or npm run flowr 
flowR repl v2.16.7, R grammar v14 (tree-sitter engine)
R> :query @linter rules:dead-code "if(FALSE) x <- 2"

Output

Query: linter (1 ms)
   ╰ Dead Code (dead-code):
       ╰ certain:
           ╰ Code at 1.11-16 (1 quick fix(es) available)

Run the linter on the given code, with only the dead-code rule enabled.

For more information on the available queries, please check out the Query API.

⚙️ Configuring FlowR

When running flowR, you may want to specify some behaviors with a dedicated configuration file. By default, flowR looks for a file named flowr.json in the current working directory (or any higher directory). You can also specify a different file with --config-file or pass the configuration inline using --config-json. A flowr.json found this way belongs to the analyzed project, so flowR ignores its options that decide what flowR executes or loads (engines.*.wasmPath, engines.*.treeSitterWasmPath, engines.*.rPath, solver.sigdb.additionalPaths, solver.sigdb.downloadRepo, solver.sigdb.installedLibrary.paths), unless you pass --trust-config. To analyze code you do not trust, use the secure mode (--secure, see the security policy). To inspect the current configuration, you can run flowr with the --verbose flag, or use the config Query. Within the REPL this works by running the following:

:query @config

To work with the FlowrConfig you can use the provided helper objects alongside its methods like FlowrConfig::amend. The schema below documents every option; the ones you most likely want are:

ignoreSourceCalls: ignore source calls when analyzing the code, i.e., ignore the inclusion of other files.
ignoreLoadCalls: ignore load calls when analyzing the code, i.e., ignore the loading of r-data files.
semantics.environment.overwriteBuiltIns: overwrite flowR's handling of built-in functions, or clear the preset definitions entirely. See Configure BuiltIn Semantics for more information.
solver.variables: how to resolve variables and their values (disabled, alias, builtin).
engines and defaultEngine: the engines used to interact with R code, see the Engines wiki page.
project.implicitSources: the files a framework loads without any source() call, in the order in which they are loaded. Entries are globs (e.g. R/*.R) matched against the file path ignoring capitalization; one matching no file is reported.
specializeConfig: overwrite (parts of) the configuration depending on the kind of project flowR detects (e.g. shiny-app), which is how a shiny app gets its implicit sources by default. What you configure directly wins.
project.useProjectType: skip that detection and force a project kind yourself, when auto-detection guesses wrong.
defaultPlugins and repl.plugins: the plugins to load for a new FlowrAnalyzer and in the REPL (use flowr:default to reference the former).

So you can configure flowR by adding a file like the following:

Example Configuration File

{
  "ignoreSourceCalls": true,
  "ignoreLoadCalls": true,
  "semantics": {
    "environment": {
      "overwriteBuiltIns": {
        "definitions": [
          {
            "type": "function",
            "names": [
              "foo"
            ],
            "processor": "builtin:assign",
            "config": {}
          }
        ]
      }
    }
  },
  "defaultPlugins": [
    "file:description",
    "versions:description"
  ],
  "repl": {
    "quickStats": false,
    "dfProcessorHeat": false,
    "hints": true,
    "plugins": [
      "flowr:default"
    ]
  },
  "project": {
    "resolveUnknownPathsOnDisk": true,
    "implicitSources": [
      "global.R",
      "app.R"
    ]
  },
  "linter": {
    "disabledRules": []
  },
  "specializeConfig": {
    "shiny-app": {
      "project": {
        "implicitSources": [
          "global.R",
          "ui.R",
          "server.R",
          "app.R"
        ]
      }
    }
  },
  "engines": [
    {
      "type": "r-shell"
    }
  ],
  "solver": {
    "variables": "alias",
    "evalStrings": true,
    "trackEnvironments": true,
    "sigdb": {
      "enabled": true,
      "loadProjectDependencies": true,
      "eagerlyLoad": false,
      "eagerlyLoadExports": false,
      "linkBaseR": false,
      "linkDescriptionDependencies": false
    },
    "resolveSource": {
      "dropPaths": "no",
      "ignoreCapitalization": true,
      "inferWorkingDirectory": "active-script",
      "searchPath": []
    },
    "instrument": {},
    "slicer": {
      "threshold": 50
    }
  },
  "abstractInterpretation": {
    "wideningThreshold": 4,
    "followCalls": true,
    "dataFrame": {
      "maxColNames": 20,
      "readLoadedData": {
        "readExternalFiles": true,
        "maxReadLines": 1000000
      }
    }
  },
  "incremental": {
    "alwaysIncremental": false,
    "parsing": {
      "activated": false,
      "heuristics": {
        "activated": true,
        "mtime": true,
        "linesFrom": 500,
        "bytesFrom": 50000,
        "alwaysWithEdits": false,
        "minFiles": 1
      }
    }
  },
  "gas": {
    "thresholds": {
      "memory": {
        "problematic": 0.7,
        "critical": 0.9
      },
      "timeMs": {
        "problematic": 100000,
        "critical": 120000
      }
    },
    "features": {}
  }
}

Configure Built-In Semantics

semantics/environment/overwriteBuiltins accepts two keys:

loadDefaults (boolean, initially true): If set to true, the default built-in definitions are loaded before applying the custom definitions. Setting this flag to false explicitly disables the loading of the default definitions.

definitions (array, initially empty): Allows to overwrite or define new built-in elements. Each object within must have a type which is one of the below. Furthermore, they may define a string array of names which specifies the identifiers to bind the definitions to. You may use assumePrimitive to specify whether flowR should assume that this is a primitive non-library definition (so you probably just do not want to specify the key).

Type	Description	Example
`constant`	Additionally allows for a `value` this should resolve to.	`{ type: 'constant', names: ['NULL', 'NA'], value: null }`
`function`	Is a rather flexible way to define and bind built-in functions. For the time, we do not have extensive documentation to cover all the cases, so please either consult the sources with the `default-builtin-config.ts` or open a new issue.	`{ type: 'function', names: ['next'], processor: 'builtin:d', config: { cfg: ExitPointType.Next } }`
`replacement`	A comfortable way to specify replacement functions like `$<-` or `names<-`. `suffixes` describes the... suffixes to attach automatically.	`{ type: 'replacement', suffixes: ['<-', '<<-'], names: ['[', '[['] }`

Full Configuration-File Schema

The configuration file format for flowR. (object)
- logLevel [optional] flowR's global minimum log level, applied when the config is loaded. (string) Only allows: 'silly', 'trace', 'debug', 'info', 'warn', 'error', 'fatal'
- ignoreSourceCalls [optional] Whether source calls should be ignored, causing {@link processSourceCall}'s behavior to be skipped. (boolean)
- ignoreLoadCalls [optional] Whether load calls should be ignored, causing {@link processLoadCall}'s behavior to be skipped. (boolean)
- semantics Configure language semantics and how flowR handles them. (object)
  - environment [optional] Semantics regarding how to handle the R environment. (object)
    - overwriteBuiltIns [optional] Do you want to overwrite (parts) of the builtin definition? (object)
      - loadDefaults [optional] Should the default configuration still be loaded? (boolean)
      - definitions [optional] The definitions to load/overwrite. (array) Valid item types:
        
        (object)
- defaultPlugins [optional] The default plugins to load when creating a new instance of FlowrAnalyzer (array) Valid item types:
  - (alternatives)
    - (string)
    - (array)
- repl Configuration options for the REPL. (object)
  - quickStats [optional] Whether to show quick stats in the REPL after each evaluation. (boolean)
  - dfProcessorHeat [optional] This instruments the dataflow processors to count how often each processor is called. (boolean)
  - hints [optional] Whether to show dim inline hints on the empty prompt (automatically disabled on non-interactive terminals). (boolean)
  - plugins [optional] The plugins to load in REPL mode (array) Valid item types:
    - (alternatives)
      - (string)
      - (array)
  - autoUseFileProtocol [optional] Prepend the file protocol to a repl input that looks like a path, instead of only warning about it. (boolean)
  - queryStats [optional] Whether :query closes with the line stating how long the queries took (:query* never prints it). (boolean)
  - showPlugins [optional] Whether :version grays out the plugins that did not activate during the last analysis. (boolean)
- project Project specific configuration options. (object)
  - resolveUnknownPathsOnDisk [optional] Whether to resolve unknown paths loaded by the r project disk when trying to source/analyze files. (boolean)
  - failOnInaccessiblePath [optional] Whether a directory that cannot be traversed during file discovery (e.g. due to permissions) aborts the analysis; when false (the default) such paths are logged and skipped. (boolean)
  - basePackages [optional] The packages considered part of R itself (base and recommended); if unset, flowR uses its built-in list. (array) Valid item types:
    - (string)
  - implicitSources [optional] Files a framework loads on its own, without any source() call (e.g. global.R in a shiny app), in the order they are loaded; flowR orders the matching project files accordingly and analyzes them as one program. Entries are case-insensitive globs matched against the file path, a plain name matches any file with that name, and entries matching no project file are warned about. Usually set per project kind via specializeConfig. (array) Valid item types:
    - (string)
  - useProjectType [optional] Overwrite the project kind flowR would otherwise infer from the analyzed files, e.g. when auto-detection guesses wrong. (string) Only allows: 'package', 'script', 'shiny-app', 'notebook', 'project', 'unknown'
  - assumeImplicitEcho [optional] Whether the top level of the analyzed code is echoed, so that every visible result printed there is collected as an output by the dependencies query (default true, false for a package). (boolean)
  - discovery [optional] Scoping options for the default project discovery. (object)
    - full [optional] Collect every file below the project root (greedy) instead of only the files the detected project kind needs (default false). (boolean)
    - perKind [optional] Per-kind include/exclude glob overrides layered on the default scoping. (object)
    - ignore [optional] Case-insensitive globs that drop matching files from the intelligent discovery, regardless of kind (e.g. .Renviron to ignore environment files). (array) Valid item types:
      - (string)
  - classification [optional] Overrides for the signals flowR uses to classify the project kind. (object)
    - shinyDescriptionTypes [optional] DESCRIPTION Type: values that mark a shiny app. (array) Valid item types:
      - (string)
    - shinyEntryFiles [optional] File names a shiny app is assembled from. (array) Valid item types:
      - (string)
    - shinyUsagePattern [optional] Regex source evidencing shiny usage in an entry file. (string)
    - notebookExtensions [optional] File extensions marking a notebook. (array) Valid item types:
      - (string)
- linter Linter configuration options. (object)
  - disabledRules Linting rule names excluded from the default rule set (a rule requested explicitly via a linter query still runs). Usually set per project kind via specializeConfig. (array) Valid item types:
    - (string)
  - disabledTags [optional] Linting rule tags whose rules are excluded from the default rule set (a rule requested explicitly via a linter query still runs). By default the cmd-check rules are disabled for everything but a package; a configured list replaces that default. (array) Valid item types:
    - (string)
- inputSources [optional] Further frameworks the input-sources analysis should know about; entries are added to flowR's defaults. (object)
  - pure [optional] Functions that only pass the constantness of their arguments on. (array) Valid item types:
    - (string)
  - param [optional] Functions whose result is a 'param' input. (array) Valid item types:
    - (string)
  - file [optional] Functions whose result is a 'file' input. (array) Valid item types:
    - (string)
  - tempfile [optional] Functions whose result is a 'tempfile' input. (array) Valid item types:
    - (string)
  - glob [optional] Functions whose result is a 'glob' input. (array) Valid item types:
    - (string)
  - net [optional] Functions whose result is a 'net' input. (array) Valid item types:
    - (string)
  - rand [optional] Functions whose result is a 'rand' input. (array) Valid item types:
    - (string)
  - system [optional] Functions whose result is a 'system' input. (array) Valid item types:
    - (string)
  - ffi [optional] Functions whose result is a 'ffi' input. (array) Valid item types:
    - (string)
  - lang [optional] Functions whose result is a 'lang' input. (array) Valid item types:
    - (string)
  - options [optional] Functions whose result is a 'options' input. (array) Valid item types:
    - (string)
  - cmdline [optional] Functions whose result is a 'cmdline' input. (array) Valid item types:
    - (string)
  - user [optional] Functions whose result is a 'user' input. (array) Valid item types:
    - (string)
  - const [optional] Functions whose result is a 'const' input. (array) Valid item types:
    - (string)
  - scope [optional] Functions whose result is a 'scope' input. (array) Valid item types:
    - (string)
  - dconst [optional] Functions whose result is a 'dconst' input. (array) Valid item types:
    - (string)
  - unknown [optional] Functions whose result is a 'unknown' input. (array) Valid item types:
    - (string)
  - linkedObjects [optional] Objects a framework provides without a definition in the code, e.g. shiny's input. (array) Valid item types:
    - (object)
  - linkedEntryPoints [optional] Calls that hand a function to a framework, which binds its objects to the parameters by position. (array) Valid item types:
    - (object)
- specializeConfig [optional] Overwrite (parts of) the configuration depending on the project kind flowR detects, e.g. to give a shiny app its implicit sources. (object)
- engines The engine or set of engines to use for interacting with R code. An empty array means all available engines will be used. (array) Valid item types:
  - (alternatives)
    - The configuration for the tree sitter engine. (object)
      - type [required] Use the tree sitter engine. (string) Only allows: 'tree-sitter'
      - wasmPath [optional] The path to the tree-sitter-r WASM binary to use. If this is undefined, this uses the default path. (string)
      - treeSitterWasmPath [optional] The path to the tree-sitter WASM binary to use. If this is undefined, this uses the default path. (string)
      - lax [optional] Whether to use the lax parser for parsing R code (allowing for syntax errors). If this is undefined, the strict parser will be used. (boolean)
    - The configuration for the R shell engine. (object)
      - type [required] Use the R shell engine. (string) Only allows: 'r-shell'
      - rPath [optional] The path to the R executable to use. If this is undefined, this uses the default path. (string)
      - pipeBind [optional] Whether to enable R's experimental pipe-bind operator "=>" by setting R_USE_PIPEBIND for the R session (default false); R itself keeps this off by default, as it is experimental and has never shipped in a release version of R. (boolean)
- defaultEngine [optional] The default engine to use for interacting with R code. If this is undefined, an arbitrary engine from the specified list will be used. (string) Only allows: 'tree-sitter', 'r-shell'
- solver How to resolve constants, constraints, cells, ... (object)
  - variables How to resolve variables and their values. (string) Only allows: 'disabled', 'alias', 'builtin'
  - evalStrings Should we include eval(parse(text="...")) calls in the dataflow graph? (boolean)
  - trackEnvironments [optional] Track user-created environments (new.env, assign/get/local with envir=, dollar-assign, attach). When false, all envir-style calls fall through conservatively. (boolean)
  - sigdb Resolving library exports from a signature database. (object)
    - enabled [optional] Resolve library()/use() exports from a signature database (default true); when false no database is consulted. (boolean)
    - loadProjectDependencies [optional] Load the project's declared dependencies from its metadata files (DESCRIPTION Imports/Depends, rproject.toml, uvr.toml, renv.lock, rv.lock, uvr.lock) (default true); when false these files are not read for dependencies. (boolean)
    - eagerlyLoad [optional] Parse the database up front rather than on the first package load (default false, ignored if disabled). (boolean)
    - eagerlyLoadExports [optional] Add a vertex for every export on load rather than on demand (default false); keeps the dataflow graph small. (boolean)
    - assumedRVersion [optional] R version assumed when resolving versioned (base-R) exports: a pin like "4.5" or "auto" to detect the installed R (default "auto"). (string)
    - linkBaseR [optional] Eagerly attach base-R namespaces so bare base calls resolve without library() (default false). (boolean)
    - linkBaseRCalls [optional] Add a lightweight Reads edge from a bare base-R call to its signature-database function vertex (default false; base-R qualification is edge-free otherwise). (boolean)
    - linkPackageCalls [optional] Add a lightweight Reads edge from a resolved package call to its signature-database function vertex (default false). (boolean)
    - linkDescriptionDependencies [optional] Eagerly attach the namespaces of the project's declared DESCRIPTION dependencies (Imports/Depends) so their exports resolve without an explicit library() (default false). (boolean)
    - warmInBackground [optional] Decompress the hot shards (base + most-downloaded) in a background task on startup so the first library() lookup is warm (default false; for long-running servers/REPLs). (boolean)
    - additionalPaths [optional] Extra directories or bundle/manifest files searched for signature databases (alongside the shipped default and $FLOWR_SIGDB_DIR); a downloaded full-history bundle placed here is mounted automatically. (array) Valid item types:
      - (string)
    - downloadRepo [optional] GitHub owner/repo the full-history bundle is downloaded from via ":signature download" (default "flowr-analysis/flowr", release tag "sigdb-v"). (string)
    - autoSync [optional] On startup, re-download shards whose committed sigdb.remote.json hash no longer matches the cache, in the background (default false; opt-in network sync after a git pull). (boolean)
    - installedLibrary [optional] Recovering packages no signature database knows from the copy installed on this machine. (object)
      - enabled [required] Recover packages no signature database knows from their installed copy (default false). (boolean)
      - paths [optional] Library directories to search; when empty they are discovered from the environment and the project. (array) Valid item types:
        
        (string)
      - useEnvironment [optional] Search the libraries R_LIBS_USER/R_LIBS/R_LIBS_SITE name (default true). (boolean)
      - useProjectLibrary [optional] Search a project-local renv/packrat library (default true). (boolean)
      - maxDepth [optional] How far to descend into the nested layout of a project-local library (default 3). (number)
      - packages [optional] Only recover packages whose name matches one of these regular expressions; empty means any. (array) Valid item types:
        
        (string)
    - blobCacheBudgetMb [optional] How many MiB of decoded package blobs every open bundle may hold together (default 16). (number)
    - versionSelection [optional] When a project constrains a dependency, resolve to the newest (default), oldest, or system-installed version satisfying it; system needs R and falls back to newest. Base-R packages always resolve against the assumed R version. (string) Only allows: 'newest', 'oldest', 'system'
    - versionOverrides [optional] Force an exact version for specific packages (name -> version), overriding both the project constraint and the versionSelection policy (default {}). (object)
  - versionManagement Policies for reasoning about dependency versions. (object)
    - linkedVersionGroups [optional] Groups of packages that must resolve to the same version; version guessing intersects each group so its members stay mutually compatible (default []). (array) Valid item types:
      - (array) Valid item types:
        
        (string)
  - assumeAttachedPackages [optional] Packages to treat as attached without a library() call, so what the built-in configuration states about them applies to the analyzed code. The base packages R attaches on startup already resolve without it. (array) Valid item types:
    - (string)
  - transitiveSideEffectRounds [optional] How many rounds the transitive side-effect fixpoint may run before it is cut off (default 32); the propagation stops on its own as soon as a round adds nothing. (number)
  - maxOverlayDepth [optional] How many binding overlays may stack on one environment frame before a write flattens them (default 4); a pure performance knob, trading lookup cost against copy cost without changing any result. (number)
  - instrument (object)
    - dataflowExtractors [optional] These keys are only intended for use within code, allowing to instrument the dataflow analyzer! (any)
  - resolveSource [optional] If lax source calls are active, flowR searches for sourced files much more freely, based on the configurations you give it. This option is only in effect if ignoreSourceCalls is set to false. (object)
    - dropPaths Allow to drop the first or all parts of the sourced path, if it is relative. (string) Only allows: 'no', 'once', 'all'
    - ignoreCapitalization Search for filenames matching in the lowercase. (boolean)
    - inferWorkingDirectory Try to infer the working directory from the main or any script to analyze. (string) Only allows: 'no', 'main-script', 'active-script', 'any-script'
    - searchPath Additionally search in these paths. (array) Valid item types:
      - (string)
    - repeatedSourceLimit [optional] How often the same file can be sourced within a single run? Please be aware: in case of cyclic sources this may not reach a fixpoint so give this a sensible limit. (number)
    - applyReplacements Provide name replacements for loaded files (array) Valid item types:
      - (object)
    - assumeFilesExist [optional] Assume a sourced file is always there, making what it defines certain instead of conditional on the source call. (boolean)
  - slicer [optional] The configuration for the slicer. (object)
    - threshold [optional] The maximum number of iterations to perform on a single function call during slicing. (number)
    - autoExtend [optional] If set, the slicer will gain an additional post-pass. (boolean)
- abstractInterpretation The configuration options for abstract interpretation. (object)
  - wideningThreshold The threshold for the number of visitations of a node at which widening should be performed to ensure the termination of the fixpoint iteration. (number)
  - followCalls Whether the abstract interpretation is interprocedural, i.e. whether it steps into the functions a call may dispatch to. (boolean)
  - dataFrame The configuration of the shape inference for data frames. (object)
    - maxColNames The maximum number of columns names to infer for data frames before over-approximating the column names to top. (number)
    - readLoadedData Configuration options for reading data frame shapes from loaded external data files, such as CSV files. (object)
      - readExternalFiles Whether data frame shapes should be extracted from loaded external files, such as CSV files. (boolean)
      - maxReadLines The maximum number of lines to read when extracting data frame shapes from loaded files, such as CSV files. (number)
- incremental (object)
  - alwaysIncremental Always take the incremental path, regardless of heuristics. (boolean)
  - parsing (object)
    - activated If set, incremental parsing will be used. (boolean)
    - heuristics (object)
      - activated [optional] If set, the heuristics for incremental parsing will be used. (boolean)
      - mtime [optional] Skip reparsing entirely if the file's modification time is unchanged since the last parse. (boolean)
      - linesFrom [optional] Only consider incremental parsing for files with at least this many lines. (number)
      - bytesFrom [optional] Only consider incremental parsing for files with at least this many bytes. (number)
      - alwaysWithEdits [optional] Always take the incremental path whenever there is a computed edit region, regardless of the other thresholds. (boolean)
      - minFiles [optional] Only apply these heuristics once the project has at least this many files loaded. (number)
- gas [optional] Resource-usage guard (gas) configuration. All feature factors default to 0 (disabled). See https://github.com/flowr-analysis/flowr/wiki/Core#gas-resource-guard. (object)
  - thresholds [optional] Thresholds for all gas checks (scaled by per-feature factor), boundable per feature. (object)
    - memory [optional] Heap-usage fraction thresholds (0-1), either shared or given per feature key (with default covering the rest). (object)
      - problematic [optional] Heap fraction (0-1) above which Problematic is returned, for every feature without an entry of its own. (number)
      - critical [optional] Heap fraction (0-1) above which Critical is returned, for every feature without an entry of its own. (number)
    - timeMs [optional] Elapsed analysis time thresholds in milliseconds, either shared or given per feature key (with default covering the rest). (object)
      - problematic [optional] Elapsed ms above which Problematic is returned, for every feature without an entry of its own. (number)
      - critical [optional] Elapsed ms above which Critical is returned, for every feature without an entry of its own. (number)
    - steps [optional] Processed-AST-node thresholds, counted rather than sampled; only a key that arms a budget (dataflow) reads them. (object)
      - problematic [optional] Processed AST nodes above which Problematic is returned, for every feature without an entry of its own. (number)
      - critical [optional] Processed AST nodes above which the extraction is cut short, for every feature without an entry of its own. (number)
    - vertices [optional] Created-dataflow-vertex thresholds, counted like steps. (object)
      - problematic [optional] Created dataflow vertices above which Problematic is returned, for every feature without an entry of its own. (number)
      - critical [optional] Created dataflow vertices above which the extraction is cut short, for every feature without an entry of its own. (number)
  - features [optional] Per-feature sensitivity factors. 0 or absent disables gas checking for that feature. A factor of 2 makes the feature twice as sensitive. Recognised keys: source, side-effect-linking, linter, slicer, dataflow. (object)
  - countedCheckEvery [optional] How many counted steps pass between two accountings of an armed check, be it a dataflow budget or the slicer's traversal (default 128); trades overshoot against the cost of the check. (number)
  - heapProvider [optional] Custom heap statistics source (programmatic configs only), overriding the built-in v8/performance.memory detection. (function)

⚒️ Writing Code

flowR can be used as a module and offers several main classes and interfaces that are interesting for extension writers (see the Visual Studio Code extension or the Core wiki page for more information).

Creating Analyses with flowR

Nowadays, instances of the FlowrAnalyzer should be used as central frontend to get analysis results from flowR. The entry points an analysis is written against are re-exported from the package root (import { FlowrAnalyzerBuilder } from '@eagleoutice/flowr'); everything else stays reachable under its own path, as in @eagleoutice/flowr/dataflow/graph/graph. For example, a program slice can be created like this:

const analyzer = await new FlowrAnalyzerBuilder()
    .setEngine('tree-sitter')
    .build();
analyzer.addRequest('x <- 1\ny <- x\nx');
const result = await analyzer.query([
    {
        type:     'static-slice',
        criteria: ['3@x']
    }
]);

For more information, please have a look at the Analyzer wiki page, which explains how to construct and use the FlowrAnalyzer in more detail. To work with specific perspectives, you can also consult the respective pages like the Dataflow Graph or the Abstract Interpretation wiki pages.

The Pipeline Executor (Low-Level Interface)

Once, in the beginning, flowR was meant to produce a dataflow graph merely to provide program slices. However, with continuous updates, the Dataflow Graph repeatedly proves to be the more interesting part. With this, we restructured flowR's originally hardcoded pipeline to be far more flexible. Now, it can be theoretically extended or replaced with arbitrary steps, optional steps, and what we call 'decorations' of these steps. In short, a slicing pipeline using the PipelineExecutor looks like this:

const slicer = new PipelineExecutor(DEFAULT_SLICING_PIPELINE, {
  parser:    new RShell(),
  request:   requestFromInput('x <- 1\nx + 1'),
  criterion: ['2@x']
})
const slice = await slicer.allRemainingSteps()
// console.log(slice.reconstruct.code)

More Information

If you compare this, with what you would have done with the old (and removed) SteppingSlicer, this essentially just requires you to replace the SteppingSlicer with the PipelineExecutor and to pass the DEFAULT_SLICING_PIPELINE as the first argument. The PipelineExecutor...

Provides structures to investigate the results of all intermediate steps
Can be executed step-by-step
Can repeat steps (e.g., to calculate multiple slices on the same input)

See the in-code documentation for more information.

Using the `RShell` to Interact with R

The RShell class allows interfacing with the R ecosystem installed on the host system. Please have a look at flowR's Engines for more information on alternatives (for example, the TreeSitterExecutor).

Important

Each RShell controls a new instance of the R interpreter, make sure to call RShell::close() when you are done.

You can start a new "session" by constructing a new object with new RShell().

However, there are several options that may be of interest (e.g., to automatically revive the shell in case of errors or to control the name location of the R process on the system).

With a shell object (let's call it shell), you can execute R code by using RShell::sendCommand, for example shell.sendCommand("1 + 1"). However, this does not return anything, so if you want to collect the output of your command, use RShell::sendCommandWithOutput instead.

💬 Communicating with the Server

As explained in the Overview, you can run the TCP server by adding the --server flag (and, due to the interactive mode, exit with the conventional CTRL+C). Currently, every connection is handled by the same underlying RShell - so the server is not designed to handle many clients at a time. Additionally, the server is not well guarded against attacks (e.g., you can theoretically spawn an arbitrary number of RShell sessions on the target machine).

Every message has to be given in a single line (i.e., without a newline in-between) and end with a newline character. Nevertheless, we will pretty-print example given in the following segments for the ease of reading.

Note

The default --server uses a simple TCP connection. If you want flowR to expose a WebSocket server instead, add the --ws flag (i.e., --server --ws) when starting flowR from the command line.

Hello Message (hello)
View Details. The server informs the client about the successful connection and provides Meta-Information.
sequenceDiagram autonumber participant Client participant Server Client-->Server: connects Server->>Client: hello
Loading
After launching flowR, for example, with docker run -it --rm eagleoutice/flowr --server (🐳️), connecting should present you with a hello message, that amongst others should reveal the versions of flowR and R, using the semver 2.0 versioning scheme. The message looks like this:
```
{
  "type": "hello",
  "clientName": "client-0",
  "versions": {
    "flowr": "2.16.7",
    "r": "4.5.0",
    "engine": "r-shell"
  }
}
```
There are currently a few messages that you can send after the hello message. If you want to slice a piece of R code you first have to send an analysis request, so that you can send one or multiple slice requests afterward. Requests for the REPL are independent of that.
Message schema (hello)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-hello.ts.
- [required] (object)
  - type [required] The type of the hello message. (string) Only allows: 'hello'
  - id [forbidden] The id of the message is always undefined (as it is the initial message and not requested). (any)
  - clientName [required] A unique name that is assigned to each client. It has no semantic meaning and is only used/useful for debugging. (string)
  - versions [required] (object)
    
    flowr [required] The version of the flowr server running in semver format. (string)
    
    r [required] The version of the underlying R shell running in semver format. (string)
    
    engine [required] The parser backend that is used to parse the R code. (string)

Analysis Message (request-file-analysis)

View Details. The server builds the dataflow graph for a given input file (or a set of files).

sequenceDiagram
    autonumber
    participant Client
    participant Server

    
    Client->>+Server: request-file-analysis
    alt
        Server-->>Client: response-file-analysis
    else
        Server-->>Client: error
    end
    deactivate  Server

The request allows the server to analyze a file and prepare it for slicing. The message can contain a filetoken, which is used to identify the file in later slice or query requests (if you do not add one, the request will not be stored and therefore, it is not available for subsequent requests).

Please note!
If you want to send and process a lot of analysis requests, but do not want to slice them, please do not pass the filetoken field. This will save the server a lot of memory allocation.

Furthermore, the request must contain either a content field to directly pass the file's content or a filepath field which contains the path to the file (this path must be accessible for the server to be useful). If you add the id field, the answer will use the same id so you can match requests and the corresponding answers. See the implementation of the request-file-analysis message for more information.

You can drop one or more stored file tokens by adding the invalidateToken field (a single token or an array of tokens). The server frees the corresponding analyses after it has answered the request.

Tip!
If you only want to drop tokens, you do not need a separate message: send a request-file-analysis that contains just the invalidateToken field (and no content or filepath). Such a request behaves like an empty file analysis and the server replies with an empty results object. Because invalidation happens after the response, you may even pass the current filetoken in invalidateToken to analyze a file once and have the server forget it right after you received the results.

Example of the request-file-analysis Message

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)
Show Details

Let's suppose you simply want to analyze the following script:
```
x <- 1
x + 1
```
For this, you can send the following request:
```
{"type":"request-file-analysis","id":"1","filetoken":"x","content":"x <- 1\nx + 1"}
```

response-file-analysis (response)

Show Details

The results field of the response effectively contains three keys of importance:

parse: which contains 1:1 the parse result in CSV format that we received from the RShell (i.e., the AST produced by the parser of the R interpreter).
normalize: which contains the normalized AST, including ids (see the info field and the Normalized AST wiki page).
dataflow: especially important is the graph field which contains the dataflow graph as a set of root vertices (see the Dataflow Graph wiki page).

As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):

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The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

You receive an error if, for whatever reason, the analysis fails (e.g., the message or code you sent contained syntax errors). It contains a human-readable description why the analysis failed (see the error message implementation for more details).

Example Error Message

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)

Show Details

{"type":"request-file-analysis","id":"1","filename":"sample.R","content":"x <-"}

error (response)

Show Details

{
  "id": "1",
  "type": "error",
  "fatal": false,
  "reason": "Error while analyzing file sample.R: GuardError: unable to parse R code (see the log for more information) for request {\"request\":\"text\",\"content\":\"x <-\"}}\n Report a Bug: https://github.com/flowr-analysis/flowr/issues/new?body=%3C!%2D%2D%20Please%20describe%20your%20issue%20in%20more%20detail%20below!%20%2D%2D%3E%0A%0A%0A%3C!%2D%2D%20Automatically%20generated%20issue%20metadata%2C%20please%20do%20not%20edit%20or%20delete%20content%20below%20this%20line%20%2D%2D%3E%0A%2D%2D%2D%0A%0AflowR%20version%3A%202.16.7%0Anode%20version%3A%20v25.6.1%0Anode%20arch%3A%20x64%0Anode%20platform%3A%20linux%0Amessage%3A%20%60unable%20to%20parse%20R%20code%20%28see%20the%20log%20for%20more%20information%29%20for%20request%20%7B%22request%22%3A%22text%22%2C%22content%22%3A%22x%20%3C%2D%22%7D%7D%60%0Astack%20trace%3A%0A%60%60%60%0A%20%20%20%20at%20guard%20%28%3C%3E%2Fsrc%2Futil%2Fassert.ts%3A128%3A9%29%0A%20%20%20%20at%20guardRetrievedOutput%20%28%3C%3E%2Fsrc%2Fr%2Dbridge%2Fretriever.ts%3A155%3A7%29%0A%20%20%20%20at%20%2Fhome%2Frunner%2Fwork%2Fflowr%2Fflowr%2Fsrc%2Fr%2Dbridge%2Fretriever.ts%3A122%3A4%0A%20%20%20%20at%20processTicksAndRejections%20%28node%3Ainternal%2Fprocess%2Ftask_queues%3A104%3A5%29%0A%20%20%20%20at%20async%20Object.parseRequests%20%5Bas%20processor%5D%20%28%3C%3E%2Fsrc%2Fr%2Dbridge%2Fparser.ts%3A108%3A19%29%0A%20%20%20%20at%20async%20PipelineExecutor.nextStep%20%28%3C%3E%2Fsrc%2Fcore%2Fpipeline%2Dexecutor.ts%3A192%3A25%29%0A%20%20%20%20at%20async%20FlowrAnalyzerCache.stepTapeUntil%20%28%3C%3E%2Fsrc%2Fproject%2Fcache%2Fflowr%2Danalyzer%2Dcache.ts%3A124%3A4%29%0A%60%60%60%0A%0A%2D%2D%2D%0A%09"
}

The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

Including the Control Flow Graph

The control flow graph is a view on the dataflow graph: the dataflow analysis records the control flow while it walks the program, and the graph projects those edges on demand. The server can expose that structure as well (please create a new issue for any bug you may encounter). For this, the analysis request may add cfg: true to its list of options.

Requesting a Control Flow Graph

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)

Show Details

{
  "type": "request-file-analysis",
  "id": "1",
  "filetoken": "x",
  "content": "if(unknown > 0) { x <- 2 } else { x <- 5 }\nfor(i in 1:x) { print(x); print(i) }",
  "cfg": true
}

response-file-analysis (response)

Show Details

The response looks basically the same as a response sent without the cfg flag. However, additionally it contains a cfg field. If you are interested in a visual representation of the control flow graph, see the visualization with mermaid.

As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):

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The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

Retrieve the Output as RDF N-Quads

The default response is formatted as JSON. However, by specifying format: "n-quads", you can retrieve the individual results (e.g., the Normalized AST), as RDF N-Quads. This works with and without the control flow graph as described above.

Requesting RDF N-Quads

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)

Show Details

{"type":"request-file-analysis","id":"1","filetoken":"x","content":"x <- 1\nx + 1","format":"n-quads","cfg":true}

response-file-analysis (response)

Show Details

The base message format is still JSON, only the individual results get converted. While the context is derived from the filename, we currently offer no way to customize other parts of the quads (please open a new issue if you require this).

As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):

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\"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/col1> \"1\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/line2> \"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/col2> \"1\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/id> \"12\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/parent> \"16\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/token> \"expr\" <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/terminal> \"false\"^^<http://www.w3.org/2001/XMLSchema#boolean> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/text> \"x\" <unknown> .\n<https://uni-ulm.de/r-ast/unknown/8> <https://uni-ulm.de/r-ast/children> <https://uni-ulm.de/r-ast/unknown/10> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/line1> \"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/col1> \"1\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/line2> \"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/col2> \"1\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/id> \"10\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/parent> \"12\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/token> \"SYMBOL\" <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/terminal> \"true\"^^<http://www.w3.org/2001/XMLSchema#boolean> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/10> <https://uni-ulm.de/r-ast/text> \"x\" <unknown> .\n<https://uni-ulm.de/r-ast/unknown/2> <https://uni-ulm.de/r-ast/children> <https://uni-ulm.de/r-ast/unknown/9> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/next> <https://uni-ulm.de/r-ast/unknown/11> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/line1> \"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/col1> \"3\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/line2> \"2\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/col2> \"3\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/id> \"11\"^^<http://www.w3.org/2001/XMLSchema#integer> <unknown> .\n<https://uni-ulm.de/r-ast/unknown/9> <https://uni-ulm.de/r-ast/parent> \"16\"^^<http://www.w3.org/2001/XMLSchema#integer> <unk
... [23500 more characters cut, run the example to see the whole response]

The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

Retrieve the Output in a Compacted Form

The default JSON response can get very big quickly. By specifying format: "compact", you can retrieve the results heavily compacted (using lz-string). This works with and without the control flow graph as described above.

Requesting Compacted Results

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)

Show Details

{"type":"request-file-analysis","id":"1","filetoken":"x","content":"x <- 1\nx + 1","format":"compact","cfg":true}

response-file-analysis (response)

Show Details

The base message format is still JSON, only the individual results are printed as binary objects.

As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):

{"type":"response-file-analysis","format":"compact","id":"1","cfg":"ᯡ࡙䂼ࢀܠ墠⹰ₛ⨢灓䤦栱䀭&℡ᤨ೨‶™堥樲Wؠ㰤䠧〬檧ᅎŢ尵礻ᬅᜲ╌⋈夥峴獊嗳䧊彬⢳ʰfጡ䊐Ō�lဢ䲙獑җ㘱瞠傱▊祵ᄨ咸䕍ᖳ䮦嗵㢔ᤉ㛎άᜀג䀢㰠ተ噧0䨫րٔᓺ僪ö⅞ᐭ䬱怫熆㢀⃒*呋བ༲⻱拐挗笧䉬ᙇؠᗢϧ玑ᥙℋ⹌ṧܴ眱䋴  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... [2158 more characters cut, run the example to see the whole response]

The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

Message schema (request-file-analysis)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-analysis.ts.

(object)
- type [required] The type of the message. (string) Only allows: 'request-file-analysis'
- id [optional] You may pass an id to link requests with responses (they get the same id). (string)
- filetoken [optional] A unique token to identify the file for subsequent requests. Only use this if you plan to send more queries! (string)
- filename [optional] A human-readable name of the file, only for debugging purposes. (string)
- content [optional] The content of the file or an R expression (either give this or the filepath). (string)
- filepath [optional] The path to the file(s) on the local machine (either give this or the content). (alternatives)
  - (string)
  - (array) Valid item types:
    - (string)
- cfg [optional] If you want to extract the control flow information of the file. (boolean)
- format [optional] The format of the results, if missing we assume json. (string) Only allows: 'json', 'n-quads', 'compact'
- invalidateToken [optional] One or more file tokens to drop from the server store after this request has been answered. (alternatives)
  - (string)
  - (array) Valid item types:
    - (string)

Message schema (response-file-analysis)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-analysis.ts.

[required] The response to a file analysis request (based on the format field). (alternatives)
- The response in JSON format. (object)
  - type [required] The type of the message. (string) Only allows: 'response-file-analysis'
  - id [optional] The id of the message, if you passed one in the request. (string)
  - format [required] The format of the results in json format. (string) Only allows: 'json'
  - results [required] The results of the analysis (one field per step). (object)
  - cfg [optional] The control flow information of the file, only present if requested. (object)
- The response as n-quads. (object)
  - type [required] The type of the message. (string) Only allows: 'response-file-analysis'
  - id [optional] The id of the message, if you passed one in the request. (string)
  - format [required] The format of the results in n-quads format. (string) Only allows: 'n-quads'
  - results [required] The results of the analysis (one field per step). Quads are presented as string. (object)
  - cfg [optional] The control flow information of the file, only present if requested. (string)
- (object)
  - type [required] The type of the message. (string) Only allows: 'response-file-analysis'
  - id [optional] The id of the message, if you passed one in the request. (string)
  - format [required] The format of the results in compact format. (string) Only allows: 'compact'
  - results [required] The results of the analysis (one field per step). (string)
  - cfg [optional] The control flow information of the file, only present if requested. (string)

Slice Message (request-slice)

View Details. (deprecated) The server slices a file based on the given criteria.

sequenceDiagram
    autonumber
    participant Client
    participant Server

    
    Client->>+Server: request-slice

    alt
        Server-->>Client: response-slice
    else
        Server-->>Client: error
    end
    deactivate  Server

We deprecated the slice request in favor of the static-slice Query.

To slice, you have to send a file analysis request first. The filetoken you assign is of use here as you can re-use it to repeatedly slice the same file. Besides that, you only need to add an array of slicing criteria, using one of the formats described on the terminology wiki page (however, instead of using ;, you can pass separate array elements). See the implementation of the request-slice message for more information.

Additionally, you may pass "noMagicComments": true to disable the automatic selection of elements based on magic comments (see below).

Example of the request-slice Message

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-file-analysis (request)
Show Details

Let's assume you want to slice the following script:
```
x <- 1
x + 1
```
For this we first request the analysis, using a filetoken of x to slice the file in the next request.
```
{"type":"request-file-analysis","id":"1","filetoken":"x","content":"x <- 1\nx + 1"}
```

response-file-analysis (response)

Show Details

See above for the general structure of the response.

As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):

{"type":"response-file-analysis","format":"json","id":"1","results":{"parse":{"files":[{"parsed":"[1,1,1,6,7,0,\"expr\",false,\"x <- 1\"],[1,1,1,1,1,3,\"SYMBOL\",true,\"x\"],[1,1,1,1,3,7,\"expr\",false,\"x\"],[1,3,1,4,2,7,\"LEFT_ASSIGN\",true,\"<-\"],[1,6,1,6,4,5,\"NUM_CONST\",true,\"1\"],[1,6,1,6,5,7,\"expr\",false,\"1\"],[2,1,2,5,16,0,\"expr\",false,\"x + 1\"],[2,1,2,1,10,12,\"SYMBOL\",true,\"x\"],[2,1,2,1,12,16,\"expr\",false,\"x\"],[2,3,2,3,11,16,\"'+'\",true,\"+\"],[2,5,2,5,13,14,\"NUM_CONST\",true,\"1\"],[2,5,2,5,14,16,\"expr\",false,\"1\"]","filePath":"/tmp/tmp-7376-9GU8CafYBbng-.R"}],".meta":{}},"normalize":{"ast":{"type":"RProject","files":[{"root":{"type":"RExpressionList","children":[{"type":"RBinaryOp","location":[1,3,1,4],"lhs":{"type":"RSymbol","location":[1,1,1,1],"content":"x","lexeme":"x","info":{"fullRange":[1,1,1,1],"adToks":[],"id":0,"parent":2,"role":"bin-l","index":0,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R"}},"rhs":{"location":[1,6,1,6],"lexeme":"1","info":{"fullRange":[1,6,1,6],"adToks":[],"id":1,"parent":2,"role":"bin-r","index":1,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R"},"type":"RNumber","content":{"num":1,"complexNumber":false,"markedAsInt":false}},"operator":"<-","lexeme":"<-","info":{"fullRange":[1,1,1,6],"adToks":[],"id":2,"parent":6,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R","index":0,"role":"el-c"}},{"type":"RBinaryOp","location":[2,3,2,3],"lhs":{"type":"RSymbol","location":[2,1,2,1],"content":"x","lexeme":"x","info":{"fullRange":[2,1,2,1],"adToks":[],"id":3,"parent":5,"role":"bin-l","index":0,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R"}},"rhs":{"location":[2,5,2,5],"lexeme":"1","info":{"fullRange":[2,5,2,5],"adToks":[],"id":4,"parent":5,"role":"bin-r","index":1,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R"},"type":"RNumber","content":{"num":1,"complexNumber":false,"markedAsInt":false}},"operator":"+","lexeme":"+","info":{"fullRange":[2,1,2,5],"adToks":[],"id":5,"parent":6,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R","index":1,"role":"el-c"}}],"info":{"adToks":[],"id":6,"nest":0,"file":"/tmp/tmp-7376-9GU8CafYBbng-.R","role":"root","index":0}},"filePath":"/tmp/tmp-7376-9GU8CafYBbng-.R"}],"info":{"id":7}},".meta":{}},"dataflow":{"unknownReferences":[],"in":[{"nodeId":2,"name":"<-","type":2},{"nodeId":5,"name":"+","type":2}],"out":[{"nodeId":0,"name":"x","type":4,"definedAt":2,"value":[1]}],"environment":{"current":{"id":1663,"parent":"<BuiltInEnvironment>","memory":[["x",[{"nodeId":0,"name":"x","type":4,"definedAt":2,"value":[1]}]]],"globalEnv":true},"level":0},"graph":{"rootVertices":[1,0,2,3,4,5],"vertexInformation":[[1,{"tag":"value","id":1}],[0,{"tag":"vdef","id":0,"source":[1]}],[2,{"tag":"fcall","id":2,"name":"<-","onlyBuiltin":true,"args":[{"nodeId":0,"type":32},{"nodeId":1,"type":32}],"origin":["builtin:assign"]}],[3,{"tag":"use","id":3}],[4,{"tag":"value","id":4}],[5,{"tag":"fcall","id":5,"name":"+","onlyBuiltin":true,"args":[{"nodeId":3,"type":32},{"nodeId":4,"type":32}],"origin":["builtin:d"]}]],"edgeInformation":[[2,[[1,{"types":65}],[0,{"types":72}],["built-in:<-",{"types":5}],[3,{"types":4096}]]],[1,[[0,{"types":4096}]]],[0,[[2,{"types":4098}],[1,{"types":2}]]],[5,[[3,{"types":65}],[4,{"types":65}],["built-in:+",{"types":5}]]],[3,[[0,{"types":1}],[4,{"types":4096}]]],[4,[[5,{"types":4096}]]]],"_unknownSideEffects":[]},"entryPoint":2,"cfgEntry":1,"exitPoints":[{"type":0,"nodeId":5}],"hooks":[],".meta":{}}}}

request-slice (request)
Show Details

The second slice criterion 2:1 is redundant for the input, as they refer to the same variable. It is only for demonstration purposes.
```
{"type":"request-slice","id":"2","filetoken":"x","criterion":["2@x","2:1"]}
```
response-slice (response)
Show Details

The results field of the response contains two keys of importance:
- slice: which contains the result of the slicing (e.g., the ids included in the slice in result).
- reconstruct: contains the reconstructed code, as well as additional meta information. The automatically selected lines correspond to additional filters (e.g., magic comments) which force the unconditional inclusion of certain elements.
```
{"type":"response-slice","id":"2","results":{}}
```

The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

The semantics of the error message are similar. If, for example, the slicing criterion is invalid or the filetoken is unknown, flowR will respond with an error.

Magic Comments

Within a document that is to be sliced, you can use magic comments to influence the slicing process:

# flowr@include_next_line will cause the next line to be included, independent of if it is important for the slice.
# flowr@include_this_line will cause the current line to be included, independent of if it is important for the slice.
# flowr@include_start and # flowr@include_end will cause the lines between them to be included, independent of if they are important for the slice. These magic comments can be nested but should appear on a separate line.

Message schema (request-slice)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-slice.ts.

(object)
- type [required] The type of the message. (string) Only allows: 'request-slice'
- id [optional] The id of the message, if you passed one in the request. (string)
- filetoken [required] The filetoken of the file to slice must be the same as with the analysis request. (string)
- criterion [required] The slicing criteria to use. (array) Valid item types:
  - (string)
- direction The direction to slice in. Defaults to backward slicing if unset. (string) Only allows: 'backward', 'forward'

Message schema (response-slice)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-slice.ts.

The response to a slice request. (object)
- type [required] The type of the message. (string) Only allows: 'response-slice'
- id [optional] The id of the message, if you passed one in the request. (string)
- results [required] The results of the slice (one field per step slicing step). (object)

REPL Message (request-repl-execution)

View Details. Access the read evaluate print loop of flowR.

sequenceDiagram
    autonumber
    participant Client
    participant Server

    
    Client->>+Server: request-repl-execution

    alt
        Server-->>Client: error
    else

    loop
        Server-->>Client: response-repl-execution
    end
        Server-->>Client: end-repl-execution

    end

    deactivate  Server

[!WARNING] To execute arbitrary R commands with a request, the server has to be started explicitly with --r-session-access. Please be aware that this introduces a security risk.

The REPL execution message allows to send a REPL command to receive its output. For more on the REPL, see the introduction, or the description below. You only have to pass the command you want to execute in the expression field. Furthermore, you can set the ansi field to true if you are interested in output formatted using ANSI escape codes. We strongly recommend you to make use of the id field to link answers with requests as you can theoretically request the execution of multiple scripts at the same time, which then happens in parallel.

[!WARNING] There is currently no automatic sandboxing or safeguarding against such requests. They execute the respective R code on your machine. Please be very careful (and do not use --r-session-access if you are unsure).

The answer on such a request is different from the other messages as the response-repl-execution message may be sent multiple times. This allows to better handle requests that require more time but already output intermediate results. You can detect the end of the execution by receiving the end-repl-execution message.

The semantics of the error message are similar to that of the other messages.

Example of the request-slice Message

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:

hello (response)

Show Details

The first message is always a hello message.

{"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}

request-repl-execution (request)

Show Details

{"type":"request-repl-execution","id":"1","expression":":help"}

response-repl-execution (response)

Show Details

The stream field (either stdout or stderr) informs you of the output's origin: either the standard output or the standard error channel. After this message follows the end marker.

Pretty-Printed Result


If enabled ('--r-session-access' and if using the 'r-shell' engine), you can just enter R expressions which get evaluated right away:
R> 1 + 1
[1] 2

Besides that, you can use the following commands. The scripts can accept further arguments. In general, those ending with [*] may be called with and without the star. 
There are the following basic commands:
  :controlflow[*]     Get mermaid code for the control-flow graph of R code (star: Returns the URL to mermaid.live) (aliases: :cfg, :cf)
     variants: :controlflowbb[*] (:cfgb, :cfb)
  :dataflow[*]        Get mermaid code for the dataflow graph (star: Returns the URL to mermaid.live) (aliases: :d, :df)
     variants: :dataflowascii (:df!), :dataflowsilent (:d#, :df#), :dataflowsimple[*] (:ds, :dfs)
  :execute            Execute the given code as R code. This requires the `--r-session-access` flag to be set and requires the r-shell engine. (aliases: :e, :r)
  :help               Show help information (aliases: :h, :?)
  :normalize[*]       Get mermaid code for the normalized AST of R code (star: Returns the URL to mermaid.live) (alias: :n)
     variants: :normalize# (:n#)
  :parse              Prints ASCII Art of the parsed, unmodified AST (alias: :p)
  :query[*]           Query the given R code (use 'help' for more information) (star: Similar to query, but returns the output in json format.)
  :quit               End the repl (aliases: :q, :exit)
  :signature          Inspect and extend the signature database: `query` (identical to :query @signature), `info <name>` for where a function comes from (identical to :query @function-info), `add <path>` to mount another database/source, `download` to fetch the full-history database. (alias: :sig)
  :version            Prints the version of flowR as well as the current version of R

Furthermore, you can directly call the following scripts which accept arguments. If you are unsure, try to add --help after the command.
  :benchmark          Benchmark the static backwards slicer
  :slicer             Static backwards executable slicer for R
  :summarizer         Summarize the results of the benchmark

You can combine commands by separating them with a semicolon ;.

Commands that accept a file path support two path prefixes:
  file://<path>   run the command once on the given file or folder
  watch://<path>  re-run the command whenever the file (or any file in the folder) changes
                     Press Ctrl+C or enter any other command to leave watch mode.

You are running flowR v2.16.7 (use :version for details). Check for newer releases and per-install upgrade steps (Docker, npm, source) at:
  https://github.com/flowr-analysis/flowr/releases

{
  "type": "response-repl-execution",
  "id": "1",
  "result": "\nIf enabled ('--r-session-access' and if using the 'r-shell' engine), you can just enter R expressions which get evaluated right away:\nR> 1 + 1\n[1] 2\n\nBesides that, you can use the following commands. The scripts can accept further arguments. In general, those ending with [*] may be called with and without the star. \nThere are the following basic commands:\n  :controlflow[*]     Get mermaid code for the control-flow graph of R code (star: Returns the URL to mermaid.live) (aliases: :cfg, :cf)\n     variants: :controlflowbb[*] (:cfgb, :cfb)\n  :dataflow[*]        Get mermaid code for the dataflow graph (star: Returns the URL to mermaid.live) (aliases: :d, :df)\n     variants: :dataflowascii (:df!), :dataflowsilent (:d#, :df#), :dataflowsimple[*] (:ds, :dfs)\n  :execute            Execute the given code as R code. This requires the `--r-session-access` flag to be set and requires the r-shell engine. (aliases: :e, :r)\n  :help               Show help information (aliases: :h, :?)\n  :normalize[*]       Get mermaid code for the normalized AST of R code (star: Returns the URL to mermaid.live) (alias: :n)\n     variants: :normalize# (:n#)\n  :parse              Prints ASCII Art of the parsed, unmodified AST (alias: :p)\n  :query[*]           Query the given R code (use 'help' for more information) (star: Similar to query, but returns the output in json format.)\n  :quit               End the repl (aliases: :q, :exit)\n  :signature          Inspect and extend the signature database: `query` (identical to :query @signature), `info <name>` for where a function comes from (identical to :query @function-info), `add <path>` to mount another database/source, `download` to fetch the full-history database. (alias: :sig)\n  :version            Prints the version of flowR as well as the current version of R\n\nFurthermore, you can directly call the following scripts which accept arguments. If you are unsure, try to add --help after the command.\n  :benchmark          Benchmark the static backwards slicer\n  :slicer             Static backwards executable slicer for R\n  :summarizer         Summarize the results of the benchmark\n\nYou can combine commands by separating them with a semicolon ;.\n\nCommands that accept a file path support two path prefixes:\n  file://<path>   run the command once on the given file or folder\n  watch://<path>  re-run the command whenever the file (or any file in the folder) changes\n                     Press Ctrl+C or enter any other command to leave watch mode.\n\nYou are running flowR v2.16.7 (use :version for details). Check for newer releases and per-install upgrade steps (Docker, npm, source) at:\n  https://github.com/flowr-analysis/flowr/releases\n",
  "stream": "stdout"
}

end-repl-execution (response)
Show Details
```
{"type":"end-repl-execution","id":"1"}
```

The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.

Message schema (request-repl-execution)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-repl.ts.

(object)
- type [required] The type of the message. (string) Only allows: 'request-repl-execution'
- id [optional] The id of the message, will be the same for the request. (string)
- ansi [optional] Should ansi formatting be enabled for the response? Is false by default. (boolean)
- expression [required] The expression to execute. (string)

Message schema (response-repl-execution)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-repl.ts.

(object)
- type [required] The type of the message. (string) Only allows: 'response-repl-execution'
- id [optional] The id of the message, will be the same for the request. (string)
- stream [required] The stream the message is from. (string) Only allows: 'stdout', 'stderr'
- result [required] The output of the execution. (string)

Message schema (end-repl-execution)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-repl.ts.

(object)
- type [required] The type of the message. (string) Only allows: 'end-repl-execution'
- id [optional] The id of the message, will be the same for the request. (string)

Query Message (request-query)
View Details. Query an analysis result for specific information.
sequenceDiagram autonumber participant Client participant Server Client->>+Server: request-query alt Server-->>Client: response-query else Server-->>Client: error end deactivate Server
Loading
To send queries, you have to send an analysis request first. The filetoken you assign is of use here as you can re-use it to repeatedly query the same file. This message provides direct access to flowR's Query API. Please consult the Query API documentation for more information.
Example of the request-query Message

Note: even though we pretty-print these messages, they are sent as a single line, ending with a newline.

The following lists all messages that were sent and received in case you want to reproduce the scenario:
1. hello (response)
  Show Details
  
  The first message is always a hello message.
  
  {"type":"hello","clientName":"client-0","versions":{"flowr":"2.16.7","r":"4.5.0","engine":"r-shell"}}
2. request-file-analysis (request)
  Show Details
  
  Let's assume you want to query the following script:
  
  library(ggplot) library(dplyr) library(readr) # read data with read_csv data <- read_csv('data.csv') data2 <- read_csv('data2.csv') m <- mean(data$x) print(m) data %>% ggplot(aes(x = x, y = y)) + geom_point() plot(data2$x, data2$y) points(data2$x, data2$y) print(mean(data2$k))
  
  .
  
  For this we first request the analysis, using a dummy filetoken of x to slice the file in the next request.
  
  { "type": "request-file-analysis", "id": "1", "filetoken": "x", "content": "library(ggplot)\nlibrary(dplyr)\nlibrary(readr)\n\n# read data with read_csv\ndata <- read_csv('data.csv')\ndata2 <- read_csv('data2.csv')\n\nm <- mean(data$x) \nprint(m)\n\ndata %>%\n\tggplot(aes(x = x, y = y)) +\n\tgeom_point()\n\t\nplot(data2$x, data2$y)\npoints(data2$x, data2$y)\n\t\nprint(mean(data2$k))" }
3. response-file-analysis (response)
  Show Details
  
  See above for the general structure of the response.
  
  As the code is pretty long, we inhibit pretty printing and syntax highlighting (JSON, hiding built-in):
  
  {"type":"response-file-analysis","format":"json","id":"1","results":{"parse":{"files":[{"parsed":"[1,1,1,15,10,0,\"expr\",false,\"library(ggplot)\"],[1,1,1,7,1,3,\"SYMBOL_FUNCTION_CALL\",true,\"library\"],[1,1,1,7,3,10,\"expr\",false,\"library\"],[1,8,1,8,2,10,\"'('\",true,\"(\"],[1,9,1,14,4,6,\"SYMBOL\",true,\"ggplot\"],[1,9,1,14,6,10,\"expr\",false,\"ggplot\"],[1,15,1,15,5,10,\"')'\",true,\")\"],[2,1,2,14,23,0,\"expr\",false,\"library(dplyr)\"],[2,1,2,7,14,16,\"SYMBOL_FUNCTION_CALL\",true,\"library\"],[2,1,2,7,16,23,\"expr\",false,\"library\"],[2,8,2,8,15,23,\"'('\",true,\"(\"],[2,9,2,13,17,19,\"SYMBOL\",true,\"dplyr\"],[2,9,2,13,19,23,\"expr\",false,\"dplyr\"],[2,14,2,14,18,23,\"')'\",true,\")\"],[3,1,3,14,36,0,\"expr\",false,\"library(readr)\"],[3,1,3,7,27,29,\"SYMBOL_FUNCTION_CALL\",true,\"library\"],[3,1,3,7,29,36,\"expr\",false,\"library\"],[3,8,3,8,28,36,\"'('\",true,\"(\"],[3,9,3,13,30,32,\"SYMBOL\",true,\"readr\"],[3,9,3,13,32,36,\"expr\",false,\"readr\"],[3,14,3,14,31,36,\"')'\",true,\")\"],[5,1,5,25,42,-59,\"COMMENT\",true,\"# 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... [769331 more characters cut, run the example to see the whole response]
4. request-query (request)
  Show Details
  
  { "type": "request-query", "id": "2", "filetoken": "x", "query": [ { "type": "compound", "query": "call-context", "commonArguments": {"kind":"visualize","subkind":"text","callTargets":"global"}, "arguments": [{"callName":"^mean$"},{"callName":"^print$","callTargets":"local"}] } ] }
5. response-query (response)
  Show Details
  
  { "type": "response-query", "id": "2", "results": { "call-context": {".meta":{},"kinds":{"visualize":{"subkinds":{"text":[{"id":31,"name":"mean","calls":["built-in"]},{"id":87,"name":"mean","calls":["built-in"]}]}}}}, ".meta": {} } }
The complete round-trip covers validating the messages as well as starting and stopping the internal mock server.
Message schema (request-query)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-query.ts.
- Request a query to be run on the file analysis information. (object)
  - type [required] The type of the message. (string) Only allows: 'request-query'
  - id [optional] If you give the id, the response will be sent to the client with the same id. (string)
  - filetoken [required] The filetoken of the file/data retrieved from the analysis request. (string)
  - query [required] The query to run on the file analysis information. (array) Valid item types:
    
    A virtual or an active query! (alternatives)
    
    Supported queries (alternatives)
    
    Call context query used to find calls in the dataflow graph (object)
    
    type [required] The type of the query. (string) Only allows: 'call-context'
    
    callName [required] Regex regarding the function name! (string)
    
    callNameExact [optional] Should we automatically add the ^ and $ anchors to the regex to make it an exact match? (boolean)
    
    kind [optional] The kind of the call, this can be used to group calls together (e.g., linking plot to visualize). Defaults to . (string)
    
    subkind [optional] The subkind of the call, this can be used to uniquely identify the respective call type when grouping the output (e.g., the normalized name, linking ggplot to plot). Defaults to . (string)
    
    callTargets [optional] Call targets the function may have. This defaults to any. Request this specifically to gain all call targets we can resolve. (string) Only allows: 'global', 'must-include-global', 'local', 'must-include-local', 'any'
    
    callTargetNamespace [optional] Only keep calls that resolve to (or are explicitly qualified with) this package (e.g. bar to find bar::foo). (string)
    
    ignoreParameterValues [optional] Should we ignore default values for parameters in the results? (boolean)
    
    includeAliases [optional] Consider a case like f <- function_of_interest, do you want uses of f to be included in the results? (boolean)
    
    fileFilter [optional] Filter that, when set, a node's file attribute must match to be considered (object)
    
    fileFilter [required] Regex that a node's file attribute must match to be considered (string)
    
    includeUndefinedFiles [optional] If fileFilter is set, but a nodes file attribute is undefined, should we include it in the results? Defaults to true. (boolean)
    
    linkTo [optional] Links the current call to the last call of the given kind. This way, you can link a call like points to the latest graphics plot etc. (alternatives)
    
    (alternatives)
    
    Links the current call to the last call of the given kind. This way, you can link a call like points to the latest graphics plot etc. (object)
    
    type [required] The type of the linkTo sub-query. (string) Only allows: 'link-to-last-call'
    
    callName [required] Test regarding the function name of the last call. Similar to callName, strings are interpreted as a regular expression, and string arrays are checked for containment. (alternatives)
    (string)
    
    (array) Valid item types:
    (string)
    
    ignoreIf [optional] Should we ignore this (source) call? Currently, there is no well working serialization for this. (function)
    
    cascadeIf [optional] Should we continue searching after the link was created? Currently, there is no well working serialization for this. (function)
    
    attachLinkInfo [optional] Additional information to attach to the link. (object)
    
    Allows to link nested calls to their parent calls. This way, you can link an assert_equal call to the parent test_that call etc. (object)
    
    type [required] The type of the linkTo sub-query. (string) Only allows: 'link-to-nested-call'
    
    callName [required] Test regarding the function name of the last call. Similar to callName, strings are interpreted as a regular expression, and string arrays are checked for containment. (alternatives)
    (string)
    
    (array) Valid item types:
    (string)
    
    ignoreIf [optional] Should we ignore this (source) call? Currently, there is no well working serialization for this. (function)
    
    attachLinkInfo [optional] Additional information to attach to the link. (object)
    
    (array) Valid item types:
    
    (alternatives)
    
    Links the current call to the last call of the given kind. This way, you can link a call like points to the latest graphics plot etc. (object)
    type [required] The type of the linkTo sub-query. (string) Only allows: 'link-to-last-call'
    
    callName [required] Test regarding the function name of the last call. Similar to callName, strings are interpreted as a regular expression, and string arrays are checked for containment. (alternatives)
    (string)
    
    (array) Valid item types:
    (string)
    
    ignoreIf [optional] Should we ignore this (source) call? Currently, there is no well working serialization for this. (function)
    
    cascadeIf [optional] Should we continue searching after the link was created? Currently, there is no well working serialization for this. (function)
    
    attachLinkInfo [optional] Additional information to attach to the link. (object)
    
    Allows to link nested calls to their parent calls. This way, you can link an assert_equal call to the parent test_that call etc. (object)
    type [required] The type of the linkTo sub-query. (string) Only allows: 'link-to-nested-call'
    
    callName [required] Test regarding the function name of the last call. Similar to callName, strings are interpreted as a regular expression, and string arrays are checked for containment. (alternatives)
    (string)
    
    (array) Valid item types:
    (string)
    
    ignoreIf [optional] Should we ignore this (source) call? Currently, there is no well working serialization for this. (function)
    
    attachLinkInfo [optional] Additional information to attach to the link. (object)
    
    The config query retrieves the current configuration of the flowR instance and optionally also updates it. (object)
    
    type [required] The type of the query. (string) Only allows: 'config'
    
    update [optional] An optional partial configuration to update the current configuration with before returning it. Only the provided fields will be updated, all other fields will remain unchanged. (object)
    
    inspect [optional] An optional .-separated path (as a string array) to read a single configuration value instead of returning the whole configuration. (array) Valid item types:
    
    (string)
    
    reset [optional] If true, discard every prior update and revert to the config the analyzer was created with, before returning it. (boolean)
    
    The control flow query provides the control flow graph of the analysis, optionally simplified. (object)
    
    type [required] The type of the query. (string) Only allows: 'control-flow'
    
    config [optional] Optional configuration for the control flow query. (object)
    
    simplificationPasses The simplification passes to apply to the control flow graph. If unset, the default simplification order will be used. (array) Valid item types:
    
    (string) Only allows: 'unique-cf-sets', 'analyze-dead-code', 'remove-dead-code', 'to-basic-blocks'
    
    A query to compute the Call Graph of the analyzed project. (object)
    
    type [required] The type of the query. (string) Only allows: 'call-graph'
    
    expandLibraryInternals [optional] Expand library/built-in leaf calls into their internal callees via the signature database (default false). (boolean)
    
    reportUnreachable [optional] Also report the calls that top-level execution never reaches (default false). (boolean)
    
    The dataflow query simply returns the dataflow graph, there is no need to pass it multiple times! (object)
    
    type [required] The type of the query. (string) Only allows: 'dataflow'
    
    environments [optional] Whether to include the environments of the vertices and function definitions (default: true). They make up most of the answer, so leave them out if only the graph itself is of interest. (boolean)
    
    Either returns all function definitions alongside whether they are recursive, or just those matching the filters. (object)
    
    type [required] The type of the query. (string) Only allows: 'does-call'
    
    queryId [optional] An optional unique identifier for this query, to identify it in the output. (string)
    
    call The function from which calls are being made. This is a slicing criterion that resolves to a function definition node. (string)
    
    calls [required] The constraints on which functions are being called. This can be a combination of name-based or id-based constraints, combined with logical operators (and, or, one-of). (object)
    
    expandLibraryInternals [optional] Expand a reached library/built-in leaf call into its internal callees via the signature database and match constraints against those too (default false). (boolean)
    
    The dataflow-lens query returns a simplified view on the dataflow graph (object)
    
    type [required] The type of the query. (string) Only allows: 'dataflow-lens'
    
    The abstract interpretation query retrieves inferred abstract values (object)
    
    type [required] The type of the query. (string) Only allows: 'absint'
    
    inference [required] The type of abstract interpretation inference. (string) Only allows: 'df-shape'
    
    criteria [optional] The slicing criteria of the nodes to get the inferred abstract values for. (array) Valid item types:
    
    (string)
    
    The file query finds files in the project based on their roles and path patterns. (object)
    
    type [required] The type of the query. (string) Only allows: 'files'
    
    roles [optional] Optional roles of the files to query. If not provided, all roles are considered. (array) Valid item types:
    
    (string) Only allows: 'description', 'namespace', 'news', 'vignette', 'test', 'install', 'data', 'documentation', 'license', 'virtual-env', 'manifest', 'startup', 'environment', 'source', 'other'
    
    matchesPathRegex [optional] An optional regular expression to match the file paths against. (string)
    
    The id map query retrieves the id map from the normalized AST. (object)
    
    type [required] The type of the query. (string) Only allows: 'id-map'
    
    The normalized AST query simply returns the normalized AST, there is no need to pass it multiple times! (object)
    
    type [required] The type of the query. (string) Only allows: 'normalized-ast'
    
    The cluster query calculates and returns all clusters in the dataflow graph. (object)
    
    type [required] The type of the query. (string) Only allows: 'dataflow-cluster'
    
    Slice query used to slice the dataflow graph (object)
    
    type [required] The type of the query. (string) Only allows: 'static-slice'
    
    criteria [required] The slicing criteria to use. (array) Valid item types:
    
    (string)
    
    direction [optional] The direction to slice in. Defaults to backward slicing if unset. (string) Only allows: 'backward', 'forward'
    
    removal [optional] Compute the removal slice instead: the code that only exists for the criteria, which can go while the rest keeps working. The result holds the removed statements, the reconstruction the program without them. (boolean)
    
    name [optional] What to call this slice: the results are keyed by it instead of by the serialized query. (string)
    
    noReconstruction [optional] Do not reconstruct the slice into readable code. (boolean)
    
    noMagicComments [optional] Should the magic comments (force-including lines within the slice) be ignored? (boolean)
    
    inlineSources [optional] Inline resolvable source() calls into the reconstruction so the result is a single self-contained R text; "banner" marks where each spliced file begins and ends with a banner comment naming it. (alternatives)
    
    (boolean)
    
    (string) Only allows: 'banner'
    
    inlineFull [optional] Inline all files into the reconstruction, in flowR's loading order and independent of whether they are sourced explicitly; "banner" precedes every file with a banner comment naming it. (alternatives)
    
    (boolean)
    
    (string) Only allows: 'banner'
    
    includeCallees [optional] If set (and slicing backward), continue the slice past a function-definition boundary, also including the definition's binding and call sites. (boolean)
    
    perFile [optional] Reconstruct the slice as the project's files, reported in reconstruct.files in loading order with their paths, instead of only the entry file. (boolean)
    
    reportPackages [optional] Also report the packages the slice calls into, i.e. what this selection needs installed rather than what the whole program loads. (boolean)
    
    Provenance query definition (object)
    
    type [required] The type of the query. (string) Only allows: 'provenance'
    
    criterion [required] The slicing criterion to use. (string)
    
    restrictFdef [required] Whether to stop on fdef boundaries. (boolean)
    
    Input Sources query definition (object)
    
    type [required] The type of the query. (string) Only allows: 'input-sources'
    
    criterion [required] The slicing criterion or array of criteria to use. (alternatives)
    
    (string)
    
    (array) Valid item types:
    
    (string)
    
    config [optional] (object)
    
    pure [optional] Deterministic/pure functions: functions that preserve constantness of their inputs (e.g., arithmetic, parse). (array) Valid item types:
    
    (string)
    
    file [optional] Functions that read from the filesystem and produce data (e.g., read.csv, readRDS). (array) Valid item types:
    
    (string)
    
    tempfile [optional] Functions that produce a temporary file path, which on its own touches no file system (e.g., tempfile, tempdir). (array) Valid item types:
    
    (string)
    
    glob [optional] Functions that answer with the paths they match at run time (e.g., list.files, Sys.glob). (array) Valid item types:
    
    (string)
    
    net [optional] Functions that fetch data from the network (e.g., download.file, url connections). (array) Valid item types:
    
    (string)
    
    rand [optional] Functions that produce randomness (e.g., runif, rnorm). (array) Valid item types:
    
    (string)
    
    system [optional] Functions that execute system commands (e.g., system, system2, shell, pipe). (array) Valid item types:
    
    (string)
    
    ffi [optional] Functions that call native code via the R FFI (.C, .Call, .Fortran, .External, dyn.load). (array) Valid item types:
    
    (string)
    
    lang [optional] Functions that produce language objects (e.g., substitute, quote, bquote, expression). (array) Valid item types:
    
    (string)
    
    options [optional] Functions that access or set global options (e.g., options, getOption). (array) Valid item types:
    
    (string)
    
    cmdline [optional] Functions that hand back what the program was invoked with (e.g., commandArgs). (array) Valid item types:
    
    (string)
    
    user [optional] Functions that read interactive user input (e.g., file.choose, readline, menu, askYesNo). (array) Valid item types:
    
    (string)
    
    sanitizers [optional] Functions whose result counts as a derived constant whatever flows in (e.g., an escaping function). (array) Valid item types:
    
    (string)
    
    evaluating [optional] Functions that evaluate code or look up names at run time, whose result is unknown (e.g., eval, do.call, exists). (array) Valid item types:
    
    (string)
    
    editing [optional] Functions that cut or replace parts of a string, undoing what a sanitizer escaped (e.g., gsub, substr). (array) Valid item types:
    
    (string)
    
    linkedObjects [optional] Objects a framework provides without a definition in the code, e.g. shiny's input. (array) Valid item types:
    
    (object)
    
    name [required] Name of the object, e.g. input. (string)
    
    type [required] How reads of the object (or of its fields) are classified. (string) Only allows: 'param', 'file', 'tempfile', 'glob', 'net', 'rand', 'system', 'ffi', 'lang', 'options', 'cmdline', 'user', 'const', 'scope', 'dconst', 'unknown'
    
    withParams [optional] Only link the object if the function binding it declares all of these parameters as well. (array) Valid item types:
    (string)
    
    linkedEntryPoints [optional] Calls that hand a function to a framework, which binds its objects to the parameters by position. (array) Valid item types:
    
    (object)
    
    call [required] The call taking the function, e.g. shiny::shinyApp. (string)
    
    argName [required] Name of the argument holding the function. (string)
    
    argIdx [required] Index of that argument when it is passed positionally. (number)
    
    params [required] Which linkedObject the framework binds to each parameter, by position. (array) Valid item types:
    (string) Only allows: 'null'
    
    The dependencies query retrieves and returns the set of all dependencies in the dataflow graph, which includes libraries, sourced files, read data, and written data. (object)
    
    type [required] The type of the query. (string) Only allows: 'dependencies'
    
    ignoreDefaultFunctions [optional] Should the set of functions that are detected by default be ignored/skipped? Defaults to false. (boolean)
    
    libraryFunctions [optional] The set of library functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    remoteFunctions [optional] The set of remote functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    sourceFunctions [optional] The set of source functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    readFunctions [optional] The set of read functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    writeFunctions [optional] The set of write functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    visualizeFunctions [optional] The set of visualize functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    transformFunctions [optional] The set of transform functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    testFunctions [optional] The set of test functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    statisticsFunctions [optional] The set of statistics functions to search for. (array) Valid item types:
    
    (object)
    
    name [required] The name of the library function. (string)
    
    package [optional] The package name of the library function (string)
    
    argIdx [optional] The index of the argument that contains the library name. (number)
    
    argName [optional] The name of the argument that contains the library name. (string)
    
    enabledCategories [optional] A set of flags that determines what types of dependencies are searched for. If unset, all dependency types are searched for. (array) Valid item types:
    
    (string)
    
    focus [optional] Focus on the dependencies at these slicing criteria: the result names every node taking part in them in .meta.focus. (array) Valid item types:
    
    (string)
    
    assumedPackages [optional] Also report the base packages R attaches on startup (e.g. stats for a bare sd()) that the code uses but never asks for explicitly, as library entries marked implicit. base is reported too, additionally marked alwaysAttached. Defaults to false. (boolean)
    
    additionalCategories [optional] A set of additional, user-supplied dependency categories, whose results will be included in the query return value. Using the name of a built-in category extends it instead of replacing it. (object) Only allows: '[object Object]'
    
    The location map query retrieves the location of every id in the ast. (object)
    
    type [required] The type of the query. (string) Only allows: 'location-map'
    
    ids [optional] Optional list of ids to filter the results by. (array) Valid item types:
    
    (string)
    
    span [optional] How much of the source the reported range covers: the token itself (default), the whole subtree of the node, or the top-level statement it belongs to. (string) Only allows: 'token', 'full', 'statement'
    
    The search query searches the normalized AST and dataflow graph for nodes that match the given search query. (object)
    
    type [required] The type of the query. (string) Only allows: 'search'
    
    search [required] The search query to execute. (object)
    
    Happens-Before tracks whether a always happens before b. (object)
    
    type [required] The type of the query. (string) Only allows: 'happens-before'
    
    a [required] The first slicing criterion. (string)
    
    b [required] The second slicing criterion. (string)
    
    Query to inspect which functions throw exceptions. (object)
    
    type [required] The type of the query. (string) Only allows: 'inspect-exception'
    
    filter [optional] If given, only function definitions that match one of the given slicing criteria are considered. Each criterion can be either line:column, line@variable-name, or $id, where the latter directly specifies the node id of the function definition to be considered. (array) Valid item types:
    
    [required] (string)
    
    Either returns all function definitions alongside whether they are higher-order functions, or just those matching the filters. (object)
    
    type [required] The type of the query. (string) Only allows: 'inspect-higher-order'
    
    filter [optional] If given, only function definitions that match one of the given slicing criteria are considered. Each criterion can be either line:column, line@variable-name, or $id, where the latter directly specifies the node id of the function definition to be considered. (array) Valid item types:
    
    [required] (string)
    
    Either returns all function definitions alongside whether they are recursive, or just those matching the filters. (object)
    
    type [required] The type of the query. (string) Only allows: 'inspect-recursion'
    
    filter [optional] If given, only function definitions that match one of the given slicing criteria are considered. Each criterion can be either line:column, line@variable-name, or $id, where the latter directly specifies the node id of the function definition to be considered. (array) Valid item types:
    
    [required] (string)
    
    Either returns all function definitions alongside what they and their formals do, or just those matching the filters. (object)
    
    type [required] The type of the query. (string) Only allows: 'inspect-fn-props'
    
    filter [optional] If given, only function definitions that match one of the given slicing criteria are considered. Each criterion can be either line:column, line@variable-name, or $id, where the latter directly specifies the node id of the function definition to be considered. (array) Valid item types:
    
    [required] (string)
    
    maxDepth [optional] How far a value is followed back through names and calls when deciding what a formal stands for (default 6). (number)
    
    only [optional] Infer only what the formals do, or only what the function itself does; both are inferred when this is left out. (string) Only allows: 'arguments', 'function'
    
    formals [optional] Keep only the formals written as one of these names. (array) Valid item types:
    
    (string)
    
    props [optional] Keep only these properties, named as the ArgProp/CallProp/SemanticCallTag members they are. (array) Valid item types:
    
    (string) Only allows: 'Forced', 'NoDefault', 'Alias', 'Value', 'Shape', 'Flag', 'Resource', 'Written', 'Nse', 'Callee', 'Presence', 'Bounds', 'Atomic', 'Handle', 'Lazy', 'Injectable', 'Deparsed', 'Pure', 'MayPure', 'Throws', 'Invisible', 'Generic', 'Method', 'Scope', 'NonDet', 'Ambient', 'Configures', 'Ffi', 'Lang', 'Strict', 'Concurrent', 'Primitive', 'Random', 'File', 'TempFile', 'Network', 'Process', 'User', 'CommandLine', 'Glob', 'Graphics', 'Database', 'Opens', 'Closes', 'Reads', 'Writes', 'Prints', 'Narrows', 'Edits', 'Statistics', 'Transforms', 'Deprecated', 'Eval', 'Html', 'JavaScript', 'LoadsPackage', 'AttachesPackage', 'ChecksPackage', 'Declares', 'Frames'
    
    The resolve value query used to get definitions of an identifier (object)
    
    type [required] The type of the query. (string) Only allows: 'resolve-value'
    
    criteria [required] The slicing criteria to use. (array) Valid item types:
    
    (string)
    
    The project query provides information on the analyzed project. (object)
    
    type [required] The type of the query. (string) Only allows: 'project'
    
    withDf [optional] Whether to include Dataflow information in the result. (boolean)
    
    showFiles [optional] Whether to include the list of files in the result. (boolean)
    
    Inspects the loaded signature database(s): loaded databases, a package, a function, or wildcard matches (optionally filtered by parameter name or required-parameter count). Names no database records are answered from flowR's own built-in configuration instead and marked as such. (object)
    
    type [required] The type of the query. (string) Only allows: 'signature'
    
    package [optional] The package to inspect (glob wildcards allowed); omit for a summary of the loaded databases. (string)
    
    function [optional] A function/symbol to inspect (glob wildcards allowed). (string)
    
    version [optional] A version spec: an exact version, a glob (3.*), a semver range (>=3.0.0, 3.x), or a release-date bound (<=2026, >=2021.05 in YYYY.MM.DD). (string)
    
    parameters [optional] Keep only functions that have a parameter matching every one of these names (glob wildcards allowed, position-independent). (array) Valid item types:
    
    (string)
    
    requiredParameters [optional] Keep only functions with exactly this many required (no-default) parameters, excluding .... (number)
    
    flowr [optional] A spec over flowR's own built-in view: name(arg, [role], name[role], ) [prop], e.g. p([alias]) [invisible]. (string)
    
    callGraph [optional] For a single function, also render its transitive call graph as a mermaid.live link (--cg). (boolean)
    
    callGraphMaxNodes [optional] How many nodes the rendered call graph may hold before the expansion stops (default 300, --cg-max <n>). (number)
    
    The resolve value query used to get definitions of an identifier (object)
    
    type [required] The type of the query. (string) Only allows: 'origin'
    
    criterion [required] The slicing criteria to use (string)
    
    The linter query lints for the given set of rules and returns the result. (object)
    
    type [required] The type of the query. (string) Only allows: 'linter'
    
    format [optional] Print the findings in a machine-readable format instead of the human-readable summary. (string) Only allows: 'text', 'sarif', 'github'
    
    rules The rules to lint for. If unset, all rules will be included. (array) Valid item types:
    
    (string) Only allows: 'deprecated-functions', 'file-path-validity', 'seeded-randomness', 'absolute-file-paths', 'unused-definitions', 'naming-convention', 'network-functions', 'dataframe-access-validation', 'dead-code', 'useless-loop', 'problematic-inputs', 'stop-call', 'roxygen-arguments', 'software-has-license', 'software-has-tests', 'no-leaked-credentials', 'undefined-symbol', 'unused-import', 'syntactically-valid', 'unclosed-connection', 'overwritten-file', 'unescaped-arguments', 'namespace-access', 'class-string-comparison', 'description-metadata', 'documentation-mismatch', 'non-ascii-code', 'true-false-abbreviation', 'bogus-return', 'package-hooks', 'global-environment-modification', 'namespace-tampering', 's3-method-consistency', 'foreign-function-calls', 'dependency-declaration', 'call-arguments', 'package-structure', 'compiled-code', 'package-metafiles', 'rd-files', 'package-data', 'package-runtime'
    
    (object)
    
    name [required] (string) Only allows: 'deprecated-functions', 'file-path-validity', 'seeded-randomness', 'absolute-file-paths', 'unused-definitions', 'naming-convention', 'network-functions', 'dataframe-access-validation', 'dead-code', 'useless-loop', 'problematic-inputs', 'stop-call', 'roxygen-arguments', 'software-has-license', 'software-has-tests', 'no-leaked-credentials', 'undefined-symbol', 'unused-import', 'syntactically-valid', 'unclosed-connection', 'overwritten-file', 'unescaped-arguments', 'namespace-access', 'class-string-comparison', 'description-metadata', 'documentation-mismatch', 'non-ascii-code', 'true-false-abbreviation', 'bogus-return', 'package-hooks', 'global-environment-modification', 'namespace-tampering', 's3-method-consistency', 'foreign-function-calls', 'dependency-declaration', 'call-arguments', 'package-structure', 'compiled-code', 'package-metafiles', 'rd-files', 'package-data', 'package-runtime'
    
    config (object)
    
    tags [optional] Lint for every rule carrying one of these tags, e.g. cmd-check for the R CMD check rules. (array) Valid item types:
    
    (string) Only allows: 'bug', 'deprecated', 'documentation', 'experimental', 'performance', 'robustness', 'rver3', 'rver4', 'readability', 'reproducibility', 'security', 'shiny', 'smell', 'style', 'usability', 'cmd-check', 'quickfix'
    
    Dice query: selects only paths from the given start nodes that reach the given end nodes. (object)
    
    type [required] The type of the query. (string) Only allows: 'dice'
    
    from [required] Slicing criteria for the start of the dice (forward slice seeds). (array) Valid item types:
    
    (string)
    
    to [required] Slicing criteria for the end of the dice (backward slice seeds). (array) Valid item types:
    
    (string)
    
    name [optional] What to call this slice: the results are keyed by it instead of by the serialized query. (string)
    
    noReconstruction [optional] Do not reconstruct the slice into readable code. (boolean)
    
    noMagicComments [optional] Should the magic comments (force-including lines within the slice) be ignored? (boolean)
    
    inlineSources [optional] Inline resolvable source() calls into the reconstruction so the result is a single self-contained R text; "banner" marks where each spliced file begins and ends with a banner comment naming it. (alternatives)
    
    (boolean)
    
    (string) Only allows: 'banner'
    
    inlineFull [optional] Inline all files into the reconstruction, in flowR's loading order and independent of whether they are sourced explicitly; "banner" precedes every file with a banner comment naming it. (alternatives)
    
    (boolean)
    
    (string) Only allows: 'banner'
    
    includeCallees [optional] If set (and slicing backward), continue the slice past a function-definition boundary, also including the definition's binding and call sites. (boolean)
    
    perFile [optional] Reconstruct the slice as the project's files, reported in reconstruct.files in loading order with their paths, instead of only the entry file. (boolean)
    
    reportPackages [optional] Also report the packages the slice calls into, i.e. what this selection needs installed rather than what the whole program loads. (boolean)
    
    Guesses the possible version range of every dependency from declared constraints and signature-database usage. (object)
    
    type [required] The type of the query. (string) Only allows: 'guess-dep-versions'
    
    packages [optional] Restrict the guess to these packages; omit to guess for every declared and used dependency. (array) Valid item types:
    
    (string)
    
    date [optional] Only consider versions released on or before this day, written YYYY.MM.DD (also YYYY or YYYY.MM). (string)
    
    maxCandidates [optional] Cap the number of candidate versions listed per dependency. (number)
    
    maxIterations [optional] Bound both fixpoint loops (mutual transitive refinement and arc consistency). (number)
    
    clean [optional] Ignore the project declared constraints (DESCRIPTION/lockfile/transitive); guess purely from code usage and the date/R bounds. (boolean)
    
    disabled [optional] Exclude these evidence sources from consideration entirely (repl: --disabled followed by their one-letter codes, e.g. --disabled ds for declared+signature). (array) Valid item types:
    
    (string) Only allows: 'declared', 'transitive', 'signature', 'date', 'base-r', 'available', 'indirect'
    
    explode [optional] Also explode the guessed space into concrete per-dependency version assignments. (object)
    
    order [optional] Iterate each dependency newest-first (default) or oldest-first. (string) Only allows: 'newest', 'oldest'
    
    prefer [optional] A version to prefer per dependency when it survives the constraints. (object)
    
    limit [optional] Cap the number of version combinations considered. Combinations whose versions cannot be loaded together are skipped, so fewer assignments may come out. (number)
    
    Reports which packages export a function name, its signature/details in each, and whether flowR itself carries a built-in definition for it. (object)
    
    type [required] The type of the query. (string) Only allows: 'function-info'
    
    name [required] The bare function/symbol name to look up. (string)
    
    packages [optional] Restrict the package list to these names; every exporting package is considered when omitted. (array) Valid item types:
    
    (string)
    
    Virtual queries (used for structure) (alternatives)
    
    Compound query used to combine queries of the same type (object)
    
    type [required] The type of the query. (string) Only allows: 'compound'
    
    query [required] The query to run on the file analysis information. (string)
    
    commonArguments [required] Common arguments for all queries. (object)
    
    arguments [required] Arguments for each query. (array) Valid item types:
    
    (object)
Message schema (response-query)

For the definition of the hello message, please see it's implementation at ./src/cli/repl/server/messages/message-query.ts.
- The response to a query request. (object)
  - type [required] (string) Only allows: 'response-query'
  - id [optional] The id of the message, will be the same for the request. (string)
  - results [required] The results of the query. (object)

📡 Ways of Connecting

If you are interested in clients that communicate with flowR, please check out the R adapter as well as the Visual Studio Code extension.

Using Netcat
Without Websocket

Suppose, you want to launch the server using a docker container. Then, start the server by (forwarding the internal default port):
```
docker run -p1042:1042 -it --rm eagleoutice/flowr --server
```
Now, using a tool like netcat to connect:
```
nc 127.0.0.1 1042
```
Within the started session, type the following message (as a single line) and press enter to see the response:
```
{"type":"request-file-analysis","content":"x <- 1","id":"1"}
```

Using Python

Without Websocket

In Python, a similar process would look like this. After starting the server as with using netcat, you can use the following script to connect:

import socket

with socket.socket(socket.AF_INET, socket.SOCK_STREAM) as s:
    s.connect(('127.0.0.1', 1042))
    print(s.recv(4096))  # for the hello message

    s.send(b'{"type":"request-file-analysis","content":"x <- 1","id":"1"}\n')

    print(s.recv(65536))  # for the response (please use a more sophisticated mechanism)

Currently maintained by Florian Sihler and Oliver Gerstl at Ulm University
Email | GitHub | Penguins | Portfolio

💮 flowR Home (Landing Page)

Interface

💻 Using the REPL

Example: Retrieving the Dataflow Graph

Example: Interfacing with the File System

Example: Run a Query

⚙️ Configuring FlowR

⚒️ Writing Code

Creating Analyses with flowR

The Pipeline Executor (Low-Level Interface)

Using the RShell to Interact with R

💬 Communicating with the Server

📡 Ways of Connecting

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Using the `RShell` to Interact with R