@eagleoutice/flowr 2.6.1 → 2.6.3

package/documentation/print-analyzer-wiki.js

@@ -1,137 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const shell_1 = require("../r-bridge/shell");
-const log_1 = require("../../test/functionality/_helper/log");
-const doc_auto_gen_1 = require("./doc-util/doc-auto-gen");
-const doc_types_1 = require("./doc-util/doc-types");
-const path_1 = __importDefault(require("path"));
-const flowr_analyzer_1 = require("../project/flowr-analyzer");
-const flowr_analyzer_builder_1 = require("../project/flowr-analyzer-builder");
-const doc_structure_1 = require("./doc-util/doc-structure");
-const doc_files_1 = require("./doc-util/doc-files");
-async function analyzerQuickExample() {
-    const analyzer = await new flowr_analyzer_builder_1.FlowrAnalyzerBuilder()
-        .addRequestFromInput('x <- 1; print(x)')
-        .setEngine('tree-sitter')
-        .build();
-    // get the dataflow
-    const df = await analyzer.dataflow();
-    // obtain the identified loading order
-    console.log(analyzer.inspectContext().files.loadingOrder.getLoadingOrder());
-    // run a dependency query
-    const results = await analyzer.query([{ type: 'dependencies' }]);
-    return { analyzer, df, results };
-}
-async function getText(shell) {
-    const rversion = (await shell.usedRVersion())?.format() ?? 'unknown';
-    const types = (0, doc_types_1.getTypesFromFolder)({
-        rootFolder: path_1.default.resolve('src/'),
-        inlineTypes: doc_types_1.mermaidHide
-    });
-    return `${(0, doc_auto_gen_1.autoGenHeader)({ filename: module.filename, purpose: 'analyzer', rVersion: rversion })}
-
-We are currently working on documenting the capabilities of the analyzer (with the plugins, their loading order, etc.). In general, the code documentation
-starting with the ${(0, doc_types_1.shortLink)(flowr_analyzer_1.FlowrAnalyzer.name, types.info)} and the ${(0, doc_types_1.shortLink)(flowr_analyzer_builder_1.FlowrAnalyzerBuilder.name, types.info)} 
-should be the best starting point.
-
-${(0, doc_structure_1.collapsibleToc)({
-        'Overview': undefined,
-        'Builder Configuration': undefined,
-        'Plugins': {
-            'Plugin Types': {
-                'Dependency Identification': undefined,
-                'Project Discovery': undefined,
-                'File Loading': undefined,
-                'Loading Order': undefined
-            },
-            'How to add a new plugin': undefined,
-            'How to add a new plugin type': undefined
-        },
-        'Context Information': {
-            'Files Context': undefined,
-            'Loading Order Context': undefined,
-            'Dependencies Context': undefined
-        },
-        'Analyzer Internals': undefined
-    })}
-
-
-${(0, doc_structure_1.section)('Overview', 2)}
-
-No matter whether you want to analyze a single R script, a couple of R notebooks, or a complete project,
-your journey starts with the ${(0, doc_types_1.shortLink)(flowr_analyzer_builder_1.FlowrAnalyzerBuilder.name, types.info)} (further described in [Builder Configuration](#builder-configuration) below).
-This builder allows you to configure the analysis in many different ways, for example, by specifying which files to analyze, which plugins to use, or
-what [Engine](${doc_files_1.FlowrWikiBaseRef}/Engines) to use for the analysis.
- 
-${(0, doc_structure_1.block)({
-        type: 'NOTE',
-        content: `If you want to quickly try out the analyzer, you can use the following code snippet that analyzes a simple R expression:
-	
-${(0, doc_types_1.printCodeOfElement)({ program: types.program, info: types.info, dropLinesStart: 1, dropLinesEnd: 2, hideDefinedAt: true }, analyzerQuickExample.name)}
-		`
-    })} 
-
-**TODO**: mention [Context](#Context_Information) 
-
-${(0, doc_structure_1.section)('Builder Configuration', 2)}
-
-**TODO** also explain buildSync and that TreeSitter has to be initialized for this 
-
-${(0, doc_structure_1.section)('Plugins', 2)}
-
-${(0, doc_structure_1.section)('Plugin Types', 3)}
-
-During the construction of a new ${(0, doc_types_1.shortLink)(flowr_analyzer_1.FlowrAnalyzer.name, types.info)}, plugins of different types are applied at different stages of the analysis.
-These plugins are grouped by their ${(0, doc_types_1.shortLink)('PluginType', types.info)} and are applied in the following order (as shown in the documentation of the ${(0, doc_types_1.shortLink)('PluginType', types.info)}):
-
-${(() => {
-        const doc = (0, doc_types_1.getDocumentationForType)('PluginType', types.info);
-        // skip until the first ```text
-        const lines = doc.split('\n');
-        const start = lines.findIndex(l => l.trim().startsWith('```text'));
-        const end = lines.findIndex((l, i) => i > start && l.trim().startsWith('```'));
-        // github rendering pls fix xD
-        return start >= 0 && end > start ? '```text\n' + lines.slice(start + 1, end).join('\n').replaceAll('▶', '>') + '\n```' : doc;
-    })()}
-
-We describe the different plugin types in more detail below.
-
-
-${(0, doc_structure_1.section)('Project Discovery', 4)}
-
-${(0, doc_structure_1.section)('File Loading', 4)}
-
-${(0, doc_structure_1.section)('Dependency Identification', 4)}
-
-${(0, doc_structure_1.section)('Loading Order', 4)}
-
-${(0, doc_structure_1.section)('How to add a new plugin', 3)}
-
-${(0, doc_structure_1.section)('How to add a new plugin type', 3)}
-
-${(0, doc_structure_1.section)('Context Information', 2)}
-
-${(0, doc_structure_1.section)('Files Context', 3)}
-
-${(0, doc_structure_1.section)('Loading Order Context', 3)}
-
-${(0, doc_structure_1.section)('Dependencies Context', 3)}
-
-${(0, doc_structure_1.section)('Analyzer Internals', 2)}
-
-`;
-}
-/** if we run this script, we want a Markdown representation of the capabilities */
-if (require.main === module) {
-    (0, log_1.setMinLevelOfAllLogs)(6 /* LogLevel.Fatal */);
-    const shell = new shell_1.RShell();
-    void getText(shell).then(str => {
-        console.log(str);
-    }).finally(() => {
-        shell.close();
-    });
-}
-//# sourceMappingURL=print-analyzer-wiki.js.map

package/documentation/print-capabilities-markdown.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-cfg-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-core-wiki.d.ts

@@ -1,2 +0,0 @@
-import { FlowrAnalyzer } from '../project/flowr-analyzer';
-export declare function inspectContextExample(analyzer: FlowrAnalyzer): void;

package/documentation/print-dataflow-graph-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-engines-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-faq-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-faq-wiki.js

@@ -1,90 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const log_1 = require("../../test/functionality/_helper/log");
-const doc_auto_gen_1 = require("./doc-util/doc-auto-gen");
-const doc_files_1 = require("./doc-util/doc-files");
-const doc_code_1 = require("./doc-util/doc-code");
-function print() {
-    return `${(0, doc_auto_gen_1.autoGenHeader)({ filename: module.filename, purpose: 'frequently asked questions' })}
-	
-## 💮 *flowR* FAQ
-
-### 🧑‍💻 *flowR* Development
-
-${qAndA('What are test labels and how do they work?', `
-Tests are labeled based on the *flowR* capabilities that they test for. The list of supported capabilities can be found on the [Capabilities](${doc_files_1.FlowrWikiBaseRef}/Capabilities) wiki page. For more extensive information on test labels, see the [test labels wiki section](${doc_files_1.FlowrWikiBaseRef}/Linting-and-Testing#test-labels).
-`)}
-
-${qAndA('How to get a REPL with debug-info/hot-reload?', `
-To enter the development repl, execute \`npm run main-dev\` in contrast to \`npm run flowr\` this will use an unminified build (keeping debug info)
-and will also watch the source files for changes and automatically recompile them. Please note, that this may have negative performance implications.
-`)}
-
-${qAndA('How do I generate mermaid diagrams?', `
-There are several ways to generate mermaid diagrams based on the input data that you want to use.
-- From the AST (abstract syntax tree): ${(0, doc_files_1.getFilePathMd)('../util/mermaid/ast.ts')}
-- From the CFG (control flow graph): ${(0, doc_files_1.getFilePathMd)('../util/mermaid/cfg.ts')}
-- From the DFG (dataflow graph): ${(0, doc_files_1.getFilePathMd)('../util/mermaid/dfg.ts')}
-`)}
-
-${qAndA('How do I create new wiki pages?', `
-To create an automatically generated wiki page, you can follow these steps:
-- Create a new file in \`src/documentation\` with a name like \`print-my-page-wiki.ts\`.
-- Add a new wiki generation script to the ${(0, doc_files_1.getFilePathMd)('../../package.json')}. You can copy one of the existing ones of the form \`"wiki:my-page": "ts-node src/documentation/print-my-page-wiki.ts"\`.
-- Add the wiki generation script to the \`broken-links-and-wiki.yml\` GitHub workflow file to enable automatic generation through the CI. You can copy one of the existing ones of the form \`update_page wiki/"My page" wiki:my-page\`.
-
-You can test your page by piping the wiki generation script to a file. For example, you can run the following command:
-${(0, doc_code_1.codeBlock)('shell', 'npm run --silent wiki:my-page > __my-page.md')}
-
-Remember not to commit this file, as it's only meant for testing.
-`)}
-
-${qAndA('Why can\'t I pass arguments when running flowR with npm?', `
-With \`npm\` you have to pass arguments in a specific way. The \`--\` operator is used to separate the \`npm\` arguments from the script arguments. For example, if you want to run \`flowR\` with the \`--help\` argument, you can use the following command:
-${(0, doc_code_1.codeBlock)('shell', 'npm run flowR -- --help')}
-`)}
-
-${qAndA('How to do logging in flowR?', `
-Check out the [Logging Section in the Linting and Testing wiki page](${doc_files_1.FlowrWikiBaseRef}/Linting-and-Testing#logging) for more information on how to do logging in *flowR*.
-`)}
-
-## 🇷 R FAQ
-
-### 📦 R Packages
-
-${qAndA('What is the R prelude and R base package?', `
-The base package contains lots of base functions like \`source\` for example. 
-The R prelude includes the base package along with several other packages.
-Packages that were loaded by the prelude can be called without prefixing the function call with the package name and the \`::\` operator. 
-
-The packages loaded by the R prelude can be seen in the \`attached base packages\` sections in the output of \`sessionInfo()\`.
-`)}
-
-${qAndA('How to get documentation for a function or package?', `
-There are a couple of ways to get documentation for a function or package. 
-
-🖥️ Firstly, if you have already installed the package the function originated from you can simply run \`?<package name>::<function name>\` in an R session to print the 
-relevant documentation. If you don't know the origin of the package, you can use 
-\`??<function name>\` in an R shell to fuzzy find all documentations containing 
-\`<function name>\` or something similar. 
-
-🌐 Secondly, if you don't have or don't want to install the package you can simply google the fully qualified name of the function. Good sources include \`rdrr.io\`
-or \`rdocumentation.org\`. Additionally, the package documentation PDF can also
-be downloaded directly from \`cran\`.  
-`)}
-
-    `.trim();
-}
-function qAndA(question, answer) {
-    return `<details>
-<summary><strong>${question}</strong></summary>
-
-${answer.trim()}
-
-</details>`;
-}
-if (require.main === module) {
-    (0, log_1.setMinLevelOfAllLogs)(6 /* LogLevel.Fatal */);
-    console.log(print());
-}
-//# sourceMappingURL=print-faq-wiki.js.map

package/documentation/print-interface-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-linter-issue.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-linter-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-linting-and-testing-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-normalized-ast-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-onboarding-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-query-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-readme.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-search-wiki.d.ts

@@ -1 +0,0 @@
-export {};

package/documentation/print-search-wiki.js

@@ -1,74 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const shell_1 = require("../r-bridge/shell");
-const log_1 = require("../../test/functionality/_helper/log");
-const doc_files_1 = require("./doc-util/doc-files");
-const doc_auto_gen_1 = require("./doc-util/doc-auto-gen");
-const doc_search_1 = require("./doc-util/doc-search");
-const flowr_search_builder_1 = require("../search/flowr-search-builder");
-const vertex_1 = require("../dataflow/graph/vertex");
-const doc_types_1 = require("./doc-util/doc-types");
-const path_1 = __importDefault(require("path"));
-const flowr_search_executor_1 = require("../search/flowr-search-executor");
-async function getText(shell) {
-    const rversion = (await shell.usedRVersion())?.format() ?? 'unknown';
-    const types = (0, doc_types_1.getTypesFromFolder)({
-        rootFolder: path_1.default.resolve('./src/search/'),
-        inlineTypes: doc_types_1.mermaidHide
-    });
-    return `${(0, doc_auto_gen_1.autoGenHeader)({ filename: module.filename, purpose: 'search API', rVersion: rversion })}
-
-This page briefly summarizes flowR's search API which provides a set of functions to search for nodes in the [Dataflow Graph](${doc_files_1.FlowrWikiBaseRef}/Dataflow%20Graph) and the 
-[Normalized AST](${doc_files_1.FlowrWikiBaseRef}/Normalized%20AST) of a given R code (the search will always consider both, with respect to your search query).
-Please see the [Interface](${doc_files_1.FlowrWikiBaseRef}/Interface) wiki page for more information on how to access this API.
-Within code, you can execute a search using the ${(0, doc_types_1.shortLink)(flowr_search_executor_1.runSearch.name, types.info)} function.
-
-For an initial motivation, let's have a look at the following example:
-
-${await (0, doc_search_1.showSearch)(shell, 'x <- x * x', flowr_search_builder_1.Q.var('x'))}
-
-This returns all references to the variable \`x\` in the code.
-However, the search API is not limited to simple variable references and can do much more.
-
-For example, let's have every definition of \`x\` in the code but the first one:
-
-${await (0, doc_search_1.showSearch)(shell, 'x <- x * x\nprint(x)\nx <- y <- 3\nprint(x)\nx <- 2', flowr_search_builder_1.Q.var('x').filter(vertex_1.VertexType.VariableDefinition).skip(1))}
-
-In summary, every search has two parts. It is initialized with a _generator_ (such as \`Q.var('x')\`)
-and can be further refined with _transformers_ or _modifiers_.
-Such queries can be constructed starting from the ${(0, doc_types_1.shortLink)('Q', types.info)} object (backed by ${(0, doc_types_1.shortLink)('FlowrSearchGenerator', types.info)}) and
-are fully serializable so you can use them when communicating with the [Query API](${doc_files_1.FlowrWikiBaseRef}/Query%20API).
-
-We offer the following generators:
-
-${Object.keys(flowr_search_builder_1.Q).sort().map(key => `- ${(0, doc_types_1.shortLink)(`FlowrSearchGenerator::${key}`, types.info)}\\\n${(0, doc_types_1.getDocumentationForType)(`FlowrSearchGenerator::${key}`, types.info)}`).join('\n')}
-
-Likewise, we have a palette of _transformers_ and _modifiers_:
-
-${
-    /* let's iterate over all methods of FlowrSearchBuilder */
-    Object.getOwnPropertyNames(Object.getPrototypeOf(new flowr_search_builder_1.FlowrSearchBuilder(undefined)))
-        .filter(n => n !== 'constructor').sort().map(key => `- ${(0, doc_types_1.shortLink)(`FlowrSearchBuilder::${key}`, types.info)}\\\n${(0, doc_types_1.getDocumentationForType)(`FlowrSearchBuilder::${key}`, types.info)}`).join('\n')}
-
-Every search (and consequently the search pipeline) works with an array of ${(0, doc_types_1.shortLink)('FlowrSearchElement', types.info)} (neatly wrapped in ${(0, doc_types_1.shortLink)('FlowrSearchElements', types.info)}).
-Hence, even operations such as \`.first\` or \`.last\` return an array of elements (albeit with a single or no element).
-The search API does its best to stay typesafe wrt. to the return type and the transformers in use. 
-In addition, it offers optimizer passes to optimize the search pipeline before execution.
-They are executed with \`.build\` which may happen automatically, whenever you want to run a search using ${(0, doc_types_1.shortLink)('runSearch', types.info)}.
-
-`;
-}
-/** if we run this script, we want a Markdown representation of the capabilities */
-if (require.main === module) {
-    (0, log_1.setMinLevelOfAllLogs)(6 /* LogLevel.Fatal */);
-    const shell = new shell_1.RShell();
-    void getText(shell).then(str => {
-        console.log(str);
-    }).finally(() => {
-        shell.close();
-    });
-}
-//# sourceMappingURL=print-search-wiki.js.map

package/queries/catalog/lineage-query/lineage-query-executor.d.ts

@@ -1,3 +0,0 @@
-import type { LineageQuery, LineageQueryResult } from './lineage-query-format';
-import type { BasicQueryData } from '../../base-query-format';
-export declare function executeLineageQuery({ analyzer }: BasicQueryData, queries: readonly LineageQuery[]): Promise<LineageQueryResult>;

package/queries/catalog/lineage-query/lineage-query-executor.js

@@ -1,22 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.executeLineageQuery = executeLineageQuery;
-const log_1 = require("../../../util/log");
-const repl_lineage_1 = require("../../../cli/repl/commands/repl-lineage");
-async function executeLineageQuery({ analyzer }, queries) {
-    const start = Date.now();
-    const result = {};
-    for (const { criterion } of queries) {
-        if (result[criterion]) {
-            log_1.log.warn('Duplicate criterion in lineage query:', criterion);
-        }
-        result[criterion] = (0, repl_lineage_1.getLineage)(criterion, (await analyzer.dataflow()).graph, (await analyzer.normalize()).idMap);
-    }
-    return {
-        '.meta': {
-            timing: Date.now() - start
-        },
-        lineages: result
-    };
-}
-//# sourceMappingURL=lineage-query-executor.js.map

package/queries/catalog/lineage-query/lineage-query-format.d.ts

@@ -1,22 +0,0 @@
-import type { BaseQueryFormat, BaseQueryResult } from '../../base-query-format';
-import type { SingleSlicingCriterion } from '../../../slicing/criterion/parse';
-import type { NodeId } from '../../../r-bridge/lang-4.x/ast/model/processing/node-id';
-import Joi from 'joi';
-import { executeLineageQuery } from './lineage-query-executor';
-/**
- * Calculates the lineage of the given criterion.
- */
-export interface LineageQuery extends BaseQueryFormat {
-    readonly type: 'lineage';
-    readonly criterion: SingleSlicingCriterion;
-}
-export interface LineageQueryResult extends BaseQueryResult {
-    /** Maps each criterion to the found lineage, duplicates are ignored. */
-    readonly lineages: Record<SingleSlicingCriterion, Set<NodeId>>;
-}
-export declare const LineageQueryDefinition: {
-    readonly executor: typeof executeLineageQuery;
-    readonly asciiSummarizer: (formatter: import("../../../util/text/ansi").OutputFormatter, _analyzer: import("../../../project/flowr-analyzer").FlowrAnalysisProvider, queryResults: BaseQueryResult, result: string[]) => true;
-    readonly schema: Joi.ObjectSchema<any>;
-    readonly flattenInvolvedNodes: (queryResults: BaseQueryResult) => NodeId[];
-};

package/queries/catalog/lineage-query/lineage-query-format.js

@@ -1,31 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.LineageQueryDefinition = void 0;
-const ansi_1 = require("../../../util/text/ansi");
-const time_1 = require("../../../util/text/time");
-const joi_1 = __importDefault(require("joi"));
-const lineage_query_executor_1 = require("./lineage-query-executor");
-const query_print_1 = require("../../query-print");
-exports.LineageQueryDefinition = {
-    executor: lineage_query_executor_1.executeLineageQuery,
-    asciiSummarizer: (formatter, _analyzer, queryResults, result) => {
-        const out = queryResults;
-        result.push(`Query: ${(0, ansi_1.bold)('lineage', formatter)} (${(0, time_1.printAsMs)(out['.meta'].timing, 0)})`);
-        for (const [criteria, lineage] of Object.entries(out.lineages)) {
-            result.push(`   ╰ ${criteria}: {${(0, query_print_1.summarizeIdsIfTooLong)(formatter, [...lineage])}}`);
-        }
-        return true;
-    },
-    schema: joi_1.default.object({
-        type: joi_1.default.string().valid('lineage').required().description('The type of the query.'),
-        criterion: joi_1.default.string().required().description('The slicing criterion of the node to get the lineage of.')
-    }).description('Lineage query used to find the lineage of a node in the dataflow graph'),
-    flattenInvolvedNodes: (queryResults) => {
-        const out = queryResults;
-        return Object.values(out.lineages).flatMap(lineage => [...lineage]);
-    }
-};
-//# sourceMappingURL=lineage-query-format.js.map

package/util/formats/adapter-format.d.ts

@@ -1,6 +0,0 @@
-import type { RParseRequest } from '../../r-bridge/retriever';
-export interface FileAdapter {
-    convertRequest(request: RParseRequest): RParseRequest;
-}
-export type SupportedFormats = 'R' | 'Rmd';
-export type SupportedDocumentTypes = '.r' | '.rmd';

package/util/formats/adapter-format.js

@@ -1,3 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-//# sourceMappingURL=adapter-format.js.map

package/util/formats/adapter.d.ts

@@ -1,18 +0,0 @@
-import type { RParseRequest, RParseRequestFromText } from '../../r-bridge/retriever';
-import type { SupportedFormats } from './adapter-format';
-export declare const FileAdapters: {
-    readonly R: {
-        convertRequest: (request: RParseRequest) => RParseRequest;
-    };
-    readonly Rmd: {
-        convertRequest: (request: RParseRequest) => RParseRequestFromText<import("./adapters/rmd-adapter").RmdInfo>;
-    };
-};
-export declare const DocumentTypeToFormat: {
-    readonly '.r': "R";
-    readonly '.rmd': "Rmd";
-};
-export type AdapterReturnTypes = ReturnType<typeof FileAdapters[keyof typeof FileAdapters]['convertRequest']>;
-export declare function requestFromFile(path: string): AdapterReturnTypes;
-export declare function requestFromText(text: string, typeHint?: SupportedFormats): AdapterReturnTypes;
-export declare function inferFileType(request: RParseRequest): keyof typeof FileAdapters;

package/util/formats/adapter.js

@@ -1,49 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.DocumentTypeToFormat = exports.FileAdapters = void 0;
-exports.requestFromFile = requestFromFile;
-exports.requestFromText = requestFromText;
-exports.inferFileType = inferFileType;
-const r_adapter_1 = require("./adapters/r-adapter");
-const path_1 = __importDefault(require("path"));
-const rmd_adapter_1 = require("./adapters/rmd-adapter");
-exports.FileAdapters = {
-    'R': r_adapter_1.RAdapter,
-    'Rmd': rmd_adapter_1.RmdAdapter
-};
-exports.DocumentTypeToFormat = {
-    '.r': 'R',
-    '.rmd': 'Rmd'
-};
-function requestFromFile(path) {
-    const baseRequest = {
-        request: 'file',
-        content: path
-    };
-    const type = inferFileType(baseRequest);
-    return exports.FileAdapters[type].convertRequest(baseRequest);
-}
-function requestFromText(text, typeHint) {
-    const baseRequest = {
-        request: 'text',
-        content: text,
-        info: typeHint ? { type: typeHint } : undefined
-    };
-    const type = inferFileType(baseRequest);
-    return exports.FileAdapters[type].convertRequest(baseRequest);
-}
-function inferFileType(request) {
-    if (request.request === 'text') {
-        return request.info ? request.info.type : 'R';
-    }
-    const type = path_1.default.extname(request.content).toLowerCase();
-    // Fallback to default if unknown
-    if (!Object.hasOwn(exports.DocumentTypeToFormat, type)) {
-        return 'R';
-    }
-    return exports.DocumentTypeToFormat[type];
-}
-//# sourceMappingURL=adapter.js.map

package/util/formats/adapters/r-adapter.d.ts

@@ -1,4 +0,0 @@
-import type { RParseRequest } from '../../../r-bridge/retriever';
-export declare const RAdapter: {
-    convertRequest: (request: RParseRequest) => RParseRequest;
-};

package/util/formats/adapters/r-adapter.js

@@ -1,7 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.RAdapter = void 0;
-exports.RAdapter = {
-    convertRequest: (request) => request
-};
-//# sourceMappingURL=r-adapter.js.map

package/util/formats/adapters/rmd-adapter.d.ts

@@ -1,26 +0,0 @@
-import type { Node } from 'commonmark';
-import type { RParseRequest, RParseRequestFromText } from '../../../r-bridge/retriever';
-export interface CodeBlock {
-    options: string;
-    code: string;
-}
-export type CodeBlockEx = CodeBlock & {
-    startpos: {
-        line: number;
-        col: number;
-    };
-};
-export interface RmdInfo {
-    type: 'Rmd';
-    blocks: CodeBlock[];
-    options: object;
-}
-export declare const RmdAdapter: {
-    convertRequest: (request: RParseRequest) => RParseRequestFromText<RmdInfo>;
-};
-export declare function isRCodeBlock(node: Node): node is Node & {
-    literal: string;
-    info: string;
-};
-export declare function restoreBlocksWithoutMd(blocks: CodeBlockEx[], totalLines: number): string;
-export declare function parseCodeBlockOptions(header: string, content: string): string;

package/util/formats/adapters/rmd-adapter.js

@@ -1,91 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.RmdAdapter = void 0;
-exports.isRCodeBlock = isRCodeBlock;
-exports.restoreBlocksWithoutMd = restoreBlocksWithoutMd;
-exports.parseCodeBlockOptions = parseCodeBlockOptions;
-const fs_1 = __importDefault(require("fs"));
-const commonmark_1 = require("commonmark");
-const gray_matter_1 = __importDefault(require("gray-matter"));
-const assert_1 = require("../../assert");
-exports.RmdAdapter = {
-    convertRequest: (request) => {
-        // Read and Parse Markdown
-        const raw = request.request === 'text'
-            ? request.content
-            : fs_1.default.readFileSync(request.content, 'utf-8').toString();
-        const parser = new commonmark_1.Parser();
-        const ast = parser.parse(raw);
-        // Parse Frontmatter
-        const frontmatter = (0, gray_matter_1.default)(raw);
-        // Parse Codeblocks
-        const walker = ast.walker();
-        const blocks = [];
-        let e;
-        while ((e = walker.next())) {
-            const node = e.node;
-            if (!isRCodeBlock(node)) {
-                continue;
-            }
-            blocks.push({
-                code: node.literal,
-                options: parseCodeBlockOptions(node.info, node.literal),
-                startpos: { line: node.sourcepos[0][0] + 1, col: 0 }
-            });
-        }
-        return {
-            request: 'text',
-            content: restoreBlocksWithoutMd(blocks, countNewlines(raw)),
-            info: {
-                // eslint-disable-next-line unused-imports/no-unused-vars
-                blocks: blocks.map(({ startpos, ...block }) => block),
-                options: frontmatter.data,
-                type: 'Rmd'
-            }
-        };
-    }
-};
-const RTagRegex = /{[rR](?:[\s,][^}]*)?}/;
-function isRCodeBlock(node) {
-    return node.type === 'code_block' && node.literal !== null && node.info !== null && RTagRegex.test(node.info);
-}
-const LineRegex = /\r\n|\r|\n/;
-function countNewlines(str) {
-    return str.split(LineRegex).length - 1;
-}
-function restoreBlocksWithoutMd(blocks, totalLines) {
-    let line = 1;
-    let output = '';
-    const goToLine = (n) => {
-        const diff = n - line;
-        (0, assert_1.guard)(diff >= 0);
-        line += diff;
-        output += '\n'.repeat(diff);
-    };
-    for (const block of blocks) {
-        goToLine(block.startpos.line);
-        output += block.code;
-        line += countNewlines(block.code);
-    }
-    // Add remainder of file 
-    goToLine(totalLines + 1);
-    return output;
-}
-function parseCodeBlockOptions(header, content) {
-    let opts = header.length === 3 // '{r}' => header.length=3 (no options in header)
-        ? ''
-        : header.substring(3, header.length - 1).trim();
-    const lines = content.split('\n');
-    for (const line of lines) {
-        if (!line.trim().startsWith('#|')) {
-            break;
-        }
-        const opt = line.substring(3);
-        opts += opts.length === 0 ? opt : `, ${opt}`;
-    }
-    return opts;
-}
-//# sourceMappingURL=rmd-adapter.js.map