@mirnoorata/codexa 0.2.0

package/dist/static-analysis.js

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+import { promises as fs } from "node:fs";
+import path from "node:path";
+import { buildIndexLocked } from "./indexer.js";
+import { loadExternalRiskSignalReport } from "./risk-ingest.js";
+import { validateCodexaSymbolReportFile } from "./symbol-report-ingest.js";
+import { isSubpath, normalizePath, stableId } from "./util.js";
+import { runCommand } from "./command.js";
+const STATIC_ANALYSIS_DIR = ".codex/static-analysis";
+const CODEQL_DB_DIR = ".codex/cache/codeql-db";
+export async function updateStaticAnalysisReports(repoInput, options = {}) {
+    const repoRoot = path.resolve(repoInput);
+    const timeoutMs = options.timeoutMs ?? 600_000;
+    const reports = [];
+    const runs = [];
+    for (const source of options.semgrepReports ?? []) {
+        reports.push(await importReport(repoRoot, "semgrep", source));
+    }
+    for (const source of options.codeqlReports ?? []) {
+        reports.push(await importReport(repoRoot, "codeql", source));
+    }
+    for (const source of options.sarifReports ?? []) {
+        reports.push(await importReport(repoRoot, "sarif", source));
+    }
+    for (const source of options.genericReports ?? []) {
+        reports.push(await importReport(repoRoot, "generic", source));
+    }
+    for (const source of options.symbolReports ?? []) {
+        reports.push(await importSymbolReport(repoRoot, source));
+    }
+    if (options.runSemgrep) {
+        const run = await runSemgrep(repoRoot, options.semgrepConfigs ?? ["p/default"], timeoutMs);
+        runs.push(run);
+        reports.push(...run.reports.map((relativePath) => ({ kind: "semgrep", source: "semgrep scan", path: relativePath, copied: false })));
+    }
+    if (options.runCodeql) {
+        const run = await runCodeql(repoRoot, options.codeqlLanguages ?? ["javascript-typescript", "python"], options.codeqlSuite ?? "code-scanning", timeoutMs);
+        runs.push(run);
+        reports.push(...run.reports.map((relativePath) => ({ kind: "codeql", source: "codeql database analyze", path: relativePath, copied: false })));
+    }
+    if (options.runShellcheck) {
+        const run = await runShellcheck(repoRoot, timeoutMs);
+        runs.push(run);
+        reports.push(...run.reports.map((relativePath) => ({ kind: "shellcheck", source: "shellcheck", path: relativePath, copied: false })));
+    }
+    const staticRiskReport = await loadExternalRiskSignalReport(repoRoot, "static-analysis-preview", new Date().toISOString());
+    const staticRiskCount = staticRiskReport.risks.length;
+    const index = options.index === false ? undefined : await buildIndexLocked({ repoRoot, writeArtifacts: true });
+    return {
+        repoRoot,
+        reports: dedupeReports(reports),
+        runs,
+        staticRiskCount,
+        index,
+        text: renderStaticAnalysisSummary(repoRoot, dedupeReports(reports), runs, staticRiskCount, staticRiskReport.diagnostics, index)
+    };
+}
+async function importReport(repoRoot, kind, sourceInput) {
+    const source = path.resolve(sourceInput);
+    const stat = await fs.stat(source).catch(() => null);
+    if (!stat?.isFile()) {
+        throw new Error(`Static analysis report not found or not a file: ${sourceInput}`);
+    }
+    const targetDir = path.join(repoRoot, STATIC_ANALYSIS_DIR);
+    await fs.mkdir(targetDir, { recursive: true });
+    if (isSubpath(source, targetDir)) {
+        return {
+            kind,
+            source,
+            path: normalizePath(path.relative(repoRoot, source)),
+            copied: false
+        };
+    }
+    const destination = path.join(targetDir, reportFileName(kind, source));
+    await fs.copyFile(source, destination);
+    return {
+        kind,
+        source,
+        path: normalizePath(path.relative(repoRoot, destination)),
+        copied: true
+    };
+}
+async function importSymbolReport(repoRoot, sourceInput) {
+    await validateCodexaSymbolReportFile(repoRoot, sourceInput);
+    return importReport(repoRoot, "symbol-report", sourceInput);
+}
+async function runSemgrep(repoRoot, configs, timeoutMs) {
+    const output = path.join(repoRoot, STATIC_ANALYSIS_DIR, "semgrep.json");
+    await fs.mkdir(path.dirname(output), { recursive: true });
+    const args = [
+        "scan",
+        ...configs.flatMap((config) => ["--config", config]),
+        "--json",
+        "--json-output",
+        output,
+        "--metrics=off",
+        repoRoot
+    ];
+    await runExternal("semgrep", args, { cwd: repoRoot, timeoutMs });
+    return {
+        tool: "semgrep",
+        command: commandForDisplay("semgrep", args),
+        reports: [normalizePath(path.relative(repoRoot, output))]
+    };
+}
+async function runCodeql(repoRoot, languages, suite, timeoutMs) {
+    const selected = normalizeCodeqlLanguages(languages);
+    if (selected.length === 0) {
+        throw new Error("At least one CodeQL language is required.");
+    }
+    const dbRoot = path.join(repoRoot, CODEQL_DB_DIR);
+    await fs.rm(dbRoot, { recursive: true, force: true });
+    await fs.mkdir(path.dirname(dbRoot), { recursive: true });
+    const createArgs = ["database", "create", dbRoot, "--db-cluster", `--language=${selected.join(",")}`, "--source-root", repoRoot, "--no-run-unnecessary-builds"];
+    await runExternal("codeql", createArgs, { cwd: repoRoot, timeoutMs });
+    const reports = [];
+    for (const language of selected) {
+        const dbPath = await findCodeqlDatabase(dbRoot, language);
+        if (!dbPath) {
+            continue;
+        }
+        const suiteLanguage = codeqlSuiteLanguage(language);
+        const output = path.join(repoRoot, STATIC_ANALYSIS_DIR, `codeql-${suiteLanguage}.sarif`);
+        await fs.mkdir(path.dirname(output), { recursive: true });
+        const analyzeArgs = [
+            "database",
+            "analyze",
+            dbPath,
+            `codeql/${suiteLanguage}-queries:codeql-suites/${suiteLanguage}-${suite}.qls`,
+            "--format=sarif-latest",
+            `--output=${output}`,
+            `--sarif-category=${language}`,
+            "--download"
+        ];
+        await runExternal("codeql", analyzeArgs, { cwd: repoRoot, timeoutMs });
+        reports.push(normalizePath(path.relative(repoRoot, output)));
+    }
+    if (reports.length === 0) {
+        throw new Error(`CodeQL database create completed, but no matching databases were found under ${normalizePath(path.relative(repoRoot, dbRoot))}.`);
+    }
+    return {
+        tool: "codeql",
+        command: `${commandForDisplay("codeql", createArgs)} && codeql database analyze ...`,
+        reports
+    };
+}
+async function runShellcheck(repoRoot, timeoutMs) {
+    const output = path.join(repoRoot, STATIC_ANALYSIS_DIR, "shellcheck.json");
+    await fs.mkdir(path.dirname(output), { recursive: true });
+    const files = await discoverShellFiles(repoRoot, timeoutMs);
+    const args = ["--format=json", ...files];
+    if (files.length === 0) {
+        await writeShellcheckRiskReport(output, repoRoot, [], files);
+        return {
+            tool: "shellcheck",
+            command: "shellcheck --format=json <no shell files>",
+            reports: [normalizePath(path.relative(repoRoot, output))]
+        };
+    }
+    const result = await runCommand("shellcheck", args, {
+        cwd: repoRoot,
+        env: externalScannerEnv(),
+        timeoutMs,
+        maxBufferBytes: 16 * 1024 * 1024,
+        okExitCodes: [0, 1]
+    });
+    if (result.ok) {
+        const parsed = parseShellcheckComments(result.stdout);
+        await writeShellcheckRiskReport(output, repoRoot, parsed, files);
+        return {
+            tool: "shellcheck",
+            command: commandForDisplay("shellcheck", args),
+            reports: [normalizePath(path.relative(repoRoot, output))]
+        };
+    }
+    const code = result.error?.code;
+    if (result.exitCode === null && code === "ENOENT") {
+        throw new Error("shellcheck is not installed or not on PATH. Install it separately, then rerun this Codexa command.");
+    }
+    if (result.timedOut) {
+        throw new Error(`shellcheck timed out after ${timeoutMs}ms.`);
+    }
+    if (result.truncated) {
+        throw new Error("shellcheck exceeded Codexa's external scanner output buffer.");
+    }
+    const details = [result.stderr, result.stdout].filter(Boolean).join("\n").trim();
+    throw new Error(`shellcheck failed${details ? `: ${details.slice(0, 2000)}` : ""}`);
+}
+async function runExternal(command, args, options) {
+    const result = await runCommand(command, args, {
+        cwd: options.cwd,
+        env: externalScannerEnv(),
+        timeoutMs: options.timeoutMs,
+        maxBufferBytes: 16 * 1024 * 1024,
+        okExitCodes: [0]
+    });
+    if (result.ok) {
+        return;
+    }
+    const code = result.error?.code;
+    if (result.exitCode === null && code === "ENOENT") {
+        throw new Error(`${command} is not installed or not on PATH. Install it separately, then rerun this Codexa command.`);
+    }
+    if (result.timedOut) {
+        throw new Error(`${command} timed out after ${options.timeoutMs}ms.`);
+    }
+    if (result.truncated) {
+        throw new Error(`${command} exceeded Codexa's external scanner output buffer.`);
+    }
+    const details = [result.stderr, result.stdout].filter(Boolean).join("\n").trim();
+    throw new Error(`${command} failed${details ? `: ${details.slice(0, 2000)}` : ""}`);
+}
+function externalScannerEnv() {
+    const allowed = [
+        "PATH",
+        "HOME",
+        "USER",
+        "LOGNAME",
+        "SHELL",
+        "TMPDIR",
+        "TMP",
+        "TEMP",
+        "LANG",
+        "LC_ALL",
+        "SYSTEMROOT",
+        "ComSpec"
+    ];
+    const env = {};
+    for (const key of allowed) {
+        const value = process.env[key];
+        if (value) {
+            env[key] = value;
+        }
+    }
+    env.GIT_TERMINAL_PROMPT = "0";
+    env.GCM_INTERACTIVE = "never";
+    env.CODEXA_EXTERNAL_SCANNER = "1";
+    return env;
+}
+function reportFileName(kind, source) {
+    const ext = path.extname(source).toLowerCase() || ".json";
+    const base = path.basename(source, path.extname(source)).replace(/[^a-zA-Z0-9._-]/g, "-").slice(0, 80) || "report";
+    const hash = stableId(kind, source);
+    return `${kind}-${base}-${hash}${ext}`;
+}
+async function discoverShellFiles(repoRoot, timeoutMs) {
+    const tracked = await runCommand("git", ["ls-files", "--cached", "--others", "--exclude-standard", "-z"], {
+        cwd: repoRoot,
+        env: externalScannerEnv(),
+        timeoutMs: Math.min(timeoutMs, 30_000),
+        maxBufferBytes: 8 * 1024 * 1024,
+        okExitCodes: [0]
+    });
+    const candidates = tracked.ok ? tracked.stdout.split("\0").filter(Boolean) : await walkShellFileCandidates(repoRoot);
+    const result = [];
+    const seen = new Set();
+    for (const candidate of candidates) {
+        const relativePath = normalizePath(candidate);
+        if (seen.has(relativePath) || shouldSkipShellCandidate(relativePath)) {
+            continue;
+        }
+        const absolutePath = path.join(repoRoot, relativePath);
+        const stat = await fs.stat(absolutePath).catch(() => null);
+        if (!stat?.isFile()) {
+            continue;
+        }
+        if (isShellPath(relativePath) || (await hasShellShebang(absolutePath))) {
+            seen.add(relativePath);
+            result.push(relativePath);
+        }
+    }
+    return result.sort((a, b) => a.localeCompare(b));
+}
+async function walkShellFileCandidates(repoRoot) {
+    const result = [];
+    const ignoredDirs = new Set([".git", ".codex", "node_modules", "dist", "build", "coverage", "__pycache__", ".venv", "venv"]);
+    async function walk(relativeDir, depth) {
+        if (depth > 8 || result.length >= 5000) {
+            return;
+        }
+        const absoluteDir = path.join(repoRoot, relativeDir);
+        let entries;
+        try {
+            entries = (await fs.readdir(absoluteDir, { withFileTypes: true })).map((entry) => ({
+                name: entry.name.toString(),
+                isDirectory: () => entry.isDirectory(),
+                isFile: () => entry.isFile()
+            }));
+        }
+        catch {
+            return;
+        }
+        for (const entry of entries) {
+            const relativePath = normalizePath(path.join(relativeDir, entry.name));
+            if (entry.isDirectory()) {
+                if (!ignoredDirs.has(entry.name)) {
+                    await walk(relativePath, depth + 1);
+                }
+                continue;
+            }
+            if (entry.isFile()) {
+                result.push(relativePath);
+            }
+        }
+    }
+    await walk("", 0);
+    return result;
+}
+function shouldSkipShellCandidate(relativePath) {
+    return (relativePath.startsWith(".codex/") ||
+        relativePath.startsWith(".git/") ||
+        relativePath.includes("/node_modules/") ||
+        relativePath.includes("/dist/") ||
+        relativePath.includes("/build/"));
+}
+function isShellPath(relativePath) {
+    return /\.(bash|bats|ksh|sh|zsh)$/i.test(relativePath);
+}
+async function hasShellShebang(absolutePath) {
+    let handle;
+    try {
+        handle = await fs.open(absolutePath, "r");
+        const buffer = Buffer.alloc(256);
+        const { bytesRead } = await handle.read(buffer, 0, buffer.length, 0);
+        const firstLine = buffer.subarray(0, bytesRead).toString("utf8").split(/\r?\n/, 1)[0] ?? "";
+        return /^#!.*\b(?:ba|z|k)?sh\b/.test(firstLine) || /^#!.*\b(?:env\s+)?sh\b/.test(firstLine);
+    }
+    catch {
+        return false;
+    }
+    finally {
+        await handle?.close().catch(() => undefined);
+    }
+}
+function parseShellcheckComments(stdout) {
+    let parsed;
+    try {
+        parsed = JSON.parse(stdout || "{}");
+    }
+    catch {
+        return [];
+    }
+    if (Array.isArray(parsed)) {
+        return parsed.filter(isShellcheckComment);
+    }
+    if (parsed && typeof parsed === "object") {
+        const comments = parsed.comments;
+        if (Array.isArray(comments)) {
+            return comments.filter(isShellcheckComment);
+        }
+    }
+    return [];
+}
+function isShellcheckComment(value) {
+    return Boolean(value && typeof value === "object");
+}
+async function writeShellcheckRiskReport(output, repoRoot, comments, files) {
+    const risks = comments.flatMap((comment) => {
+        const filePath = stringValue(comment.file);
+        const normalizedPath = filePath ? normalizeShellcheckPath(filePath, repoRoot) : undefined;
+        const code = numberValue(comment.code);
+        const message = stringValue(comment.message) ?? "ShellCheck finding";
+        if (!normalizedPath || !code) {
+            return [];
+        }
+        const severity = shellcheckSeverity(stringValue(comment.level));
+        return [
+            {
+                path: normalizedPath,
+                line: numberValue(comment.line),
+                signal: `shellcheck.SC${code}`,
+                severity,
+                confidence: "authoritative",
+                score: shellcheckScore(severity),
+                reason: message
+            }
+        ];
+    });
+    await fs.writeFile(output, `${JSON.stringify({
+        tool: "shellcheck",
+        generatedAt: new Date().toISOString(),
+        files,
+        risks
+    }, null, 2)}\n`, "utf8");
+}
+function normalizeShellcheckPath(filePath, repoRoot) {
+    if (path.isAbsolute(filePath)) {
+        if (!isSubpath(filePath, repoRoot)) {
+            return undefined;
+        }
+        return normalizePath(path.relative(repoRoot, filePath));
+    }
+    const normalized = normalizePath(filePath);
+    if (normalized === ".." || normalized.startsWith("../") || path.isAbsolute(normalized)) {
+        return undefined;
+    }
+    return normalized;
+}
+function stringValue(value) {
+    return typeof value === "string" && value.trim() ? value.trim() : undefined;
+}
+function numberValue(value) {
+    return typeof value === "number" && Number.isFinite(value) ? value : undefined;
+}
+function shellcheckSeverity(level) {
+    const normalized = level?.toLowerCase();
+    if (normalized === "error") {
+        return "ERROR";
+    }
+    if (normalized === "warning") {
+        return "WARNING";
+    }
+    return "INFO";
+}
+function shellcheckScore(severity) {
+    if (severity === "ERROR") {
+        return 3;
+    }
+    if (severity === "WARNING") {
+        return 2;
+    }
+    return 1;
+}
+function dedupeReports(reports) {
+    const seen = new Set();
+    const result = [];
+    for (const report of reports) {
+        const key = `${report.kind}\0${report.path}`;
+        if (seen.has(key)) {
+            continue;
+        }
+        seen.add(key);
+        result.push(report);
+    }
+    return result.sort((a, b) => a.path.localeCompare(b.path) || a.kind.localeCompare(b.kind));
+}
+function normalizeCodeqlLanguages(languages) {
+    const aliases = {
+        javascript: "javascript-typescript",
+        typescript: "javascript-typescript",
+        js: "javascript-typescript",
+        ts: "javascript-typescript",
+        py: "python"
+    };
+    return [...new Set(languages.map((language) => aliases[language] ?? language).filter((language) => ["javascript-typescript", "python"].includes(language)))].sort();
+}
+async function findCodeqlDatabase(dbRoot, language) {
+    const candidates = uniqueCodeqlDbCandidates(language).map((candidate) => path.join(dbRoot, candidate));
+    for (const candidate of candidates) {
+        const stat = await fs.stat(candidate).catch(() => null);
+        if (stat?.isDirectory()) {
+            return candidate;
+        }
+    }
+    return undefined;
+}
+function uniqueCodeqlDbCandidates(language) {
+    if (language === "javascript-typescript") {
+        return ["javascript-typescript", "javascript", "typescript"];
+    }
+    return [language];
+}
+function codeqlSuiteLanguage(language) {
+    return language === "javascript-typescript" ? "javascript" : language;
+}
+function commandForDisplay(command, args) {
+    return [command, ...args].map(shellWord).join(" ");
+}
+function shellWord(value) {
+    if (/^[a-zA-Z0-9_./:=,+-]+$/.test(value)) {
+        return value;
+    }
+    return `'${value.replaceAll("'", "'\\''")}'`;
+}
+function renderStaticAnalysisSummary(repoRoot, reports, runs, staticRiskCount, diagnostics, index) {
+    const lines = [
+        "Codexa static-analysis update",
+        `Repo: ${repoRoot}`,
+        `Reports available: ${reports.length}`,
+        `Static-analysis risk facts: ${staticRiskCount}`,
+        index ? `Reindexed: ${index.files.length} files, ${index.symbols.length} symbols, ${index.usageSites.length} usage sites` : "Reindexed: skipped"
+    ];
+    if (reports.length > 0) {
+        lines.push("", "Reports:");
+        for (const report of reports) {
+            lines.push(`- ${report.path}: ${report.kind}${report.copied ? "; copied" : "; existing/generated"}`);
+        }
+    }
+    if (diagnostics.length > 0) {
+        lines.push("", "Report diagnostics:");
+        for (const diagnostic of diagnostics.slice(0, 12)) {
+            const size = diagnostic.sizeBytes === undefined ? "" : ` (${diagnostic.sizeBytes} bytes`;
+            const cap = diagnostic.limitBytes === undefined ? "" : `; cap ${diagnostic.limitBytes} bytes`;
+            lines.push(`- ${diagnostic.path}: ${diagnostic.reason}${size ? `${size}${cap})` : ""}`);
+        }
+    }
+    if (runs.length > 0) {
+        lines.push("", "External scanner runs:");
+        for (const run of runs) {
+            lines.push(`- ${run.tool}: ${run.command}`);
+        }
+    }
+    lines.push("", "License boundary: Codexa ingests reports from user-installed tools; it does not vendor Semgrep, CodeQL, ShellCheck, rules, query packs, or binaries.");
+    return lines.join("\n");
+}
+//# sourceMappingURL=static-analysis.js.map

package/dist/static-analysis.js.map

@@ -0,0 +1 @@
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package/dist/symbol-report-ingest.d.ts

@@ -0,0 +1,8 @@
+import type { FileFact, GraphEdgeFact, SymbolFact } from "./types.js";
+export interface ExternalSymbolFacts {
+    files: FileFact[];
+    symbols: SymbolFact[];
+    graphEdges: GraphEdgeFact[];
+}
+export declare function validateCodexaSymbolReportFile(repoRoot: string, sourceInput: string): Promise<void>;
+export declare function loadExternalSymbolReportFacts(repoRoot: string, snapshotId: string, indexedAt: string, dirtyFiles: Set<string>): Promise<ExternalSymbolFacts>;