@mycelish/cli 0.1.0

package/dist/commands/health-checks/config-check.d.ts

@@ -0,0 +1,34 @@
+/**
+ * Config file validation checks for doctor command.
+ */
+import { type ToolId } from "@mycelish/core";
+import type { DiagnosticResult } from "./types.js";
+/**
+ * Check if global ~/.mycelium directory exists
+ */
+export declare function checkGlobalMyceliumExists(): Promise<DiagnosticResult>;
+/**
+ * Check if manifest.yaml is valid
+ */
+export declare function checkManifestValid(): Promise<DiagnosticResult>;
+/**
+ * Check if tool skills directory exists
+ */
+export declare function checkToolPathExists(toolId: ToolId): Promise<DiagnosticResult>;
+/**
+ * Check for broken symlinks in a directory
+ */
+export declare function checkBrokenSymlinks(dirPath: string): Promise<DiagnosticResult>;
+/**
+ * Check if MCP JSON config is valid
+ */
+export declare function checkMcpConfigJson(configPath: string): Promise<DiagnosticResult>;
+/**
+ * Check if MCP YAML config is valid
+ */
+export declare function checkMcpConfigYaml(configPath: string): Promise<DiagnosticResult>;
+/**
+ * Check for orphaned configs (skills synced to disabled tools)
+ */
+export declare function checkOrphanedConfigs(): Promise<DiagnosticResult>;
+//# sourceMappingURL=config-check.d.ts.map

package/dist/commands/health-checks/config-check.d.ts.map

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package/dist/commands/health-checks/config-check.js

@@ -0,0 +1,267 @@
+/**
+ * Config file validation checks for doctor command.
+ */
+import * as fs from "node:fs/promises";
+import * as path from "node:path";
+import * as yaml from "yaml";
+import { TOOL_REGISTRY, resolvePath, expandPath, pathExists, } from "@mycelish/core";
+/**
+ * Check if global ~/.mycelium directory exists
+ */
+export async function checkGlobalMyceliumExists() {
+    const globalPath = expandPath("~/.mycelium");
+    const exists = await pathExists(globalPath);
+    if (exists) {
+        return {
+            name: "Global Mycelium Directory",
+            status: "pass",
+            message: `~/.mycelium exists`,
+        };
+    }
+    return {
+        name: "Global Mycelium Directory",
+        status: "fail",
+        message: "~/.mycelium not found",
+        fix: "Run: mycelium init --global",
+    };
+}
+/**
+ * Check if manifest.yaml is valid
+ */
+export async function checkManifestValid() {
+    const manifestPath = expandPath("~/.mycelium/manifest.yaml");
+    const exists = await pathExists(manifestPath);
+    if (!exists) {
+        return {
+            name: "Manifest Configuration",
+            status: "fail",
+            message: "manifest.yaml not found",
+            fix: "Run: mycelium init --global",
+        };
+    }
+    try {
+        const content = await fs.readFile(manifestPath, "utf-8");
+        yaml.parse(content);
+        return {
+            name: "Manifest Configuration",
+            status: "pass",
+            message: "manifest.yaml is valid",
+        };
+    }
+    catch (error) {
+        return {
+            name: "Manifest Configuration",
+            status: "fail",
+            message: `Invalid YAML syntax: ${error instanceof Error ? error.message : String(error)}`,
+            fix: "Check manifest.yaml for syntax errors",
+        };
+    }
+}
+/**
+ * Check if tool skills directory exists
+ */
+export async function checkToolPathExists(toolId) {
+    const desc = TOOL_REGISTRY[toolId];
+    const skillsPath = resolvePath(desc.paths.skills);
+    const exists = skillsPath ? await pathExists(skillsPath) : false;
+    if (exists) {
+        return {
+            name: `${desc.display.name} Skills Path`,
+            status: "pass",
+            message: `Skills directory exists: ${skillsPath}`,
+        };
+    }
+    return {
+        name: `${desc.display.name} Skills Path`,
+        status: "warn",
+        message: `Skills directory not found: ${skillsPath ?? "(none)"}`,
+        fix: "Run: mycelium sync",
+    };
+}
+/**
+ * Check for broken symlinks in a directory
+ */
+export async function checkBrokenSymlinks(dirPath) {
+    const exists = await pathExists(dirPath);
+    if (!exists) {
+        return {
+            name: "Symlink Check",
+            status: "pass",
+            message: `Directory not present: ${dirPath}`,
+        };
+    }
+    try {
+        const entries = await fs.readdir(dirPath, { withFileTypes: true });
+        const symlinks = entries.filter((e) => e.isSymbolicLink());
+        if (symlinks.length === 0) {
+            return {
+                name: "Symlink Check",
+                status: "pass",
+                message: "All symlinks are valid (no symlinks found)",
+            };
+        }
+        const brokenSymlinks = [];
+        for (const symlink of symlinks) {
+            const symlinkPath = path.join(dirPath, symlink.name);
+            try {
+                await fs.stat(symlinkPath); // stat follows symlinks
+            }
+            catch {
+                brokenSymlinks.push(symlink.name);
+            }
+        }
+        if (brokenSymlinks.length === 0) {
+            return {
+                name: "Symlink Check",
+                status: "pass",
+                message: `All ${symlinks.length} symlinks are valid`,
+            };
+        }
+        return {
+            name: "Symlink Check",
+            status: "fail",
+            message: `${brokenSymlinks.length} broken symlinks: ${brokenSymlinks.join(", ")}`,
+            fix: "Run: mycelium sync --force",
+        };
+    }
+    catch (error) {
+        return {
+            name: "Symlink Check",
+            status: "fail",
+            message: `Error checking symlinks: ${error instanceof Error ? error.message : String(error)}`,
+        };
+    }
+}
+/**
+ * Check if MCP JSON config is valid
+ */
+export async function checkMcpConfigJson(configPath) {
+    const exists = await pathExists(configPath);
+    if (!exists) {
+        return {
+            name: "MCP JSON Config",
+            status: "pass",
+            message: `Config not present: ${configPath}`,
+        };
+    }
+    try {
+        const content = await fs.readFile(configPath, "utf-8");
+        JSON.parse(content);
+        return {
+            name: "MCP JSON Config",
+            status: "pass",
+            message: `Config is valid: ${configPath}`,
+        };
+    }
+    catch (error) {
+        return {
+            name: "MCP JSON Config",
+            status: "fail",
+            message: `Invalid JSON syntax in ${configPath}: ${error instanceof Error ? error.message : String(error)}`,
+            fix: `Check ${configPath} for syntax errors`,
+        };
+    }
+}
+/**
+ * Check if MCP YAML config is valid
+ */
+export async function checkMcpConfigYaml(configPath) {
+    const exists = await pathExists(configPath);
+    if (!exists) {
+        return {
+            name: "MCP YAML Config",
+            status: "pass",
+            message: `Config not present: ${configPath}`,
+        };
+    }
+    try {
+        const content = await fs.readFile(configPath, "utf-8");
+        yaml.parse(content);
+        return {
+            name: "MCP YAML Config",
+            status: "pass",
+            message: `Config is valid: ${configPath}`,
+        };
+    }
+    catch (error) {
+        return {
+            name: "MCP YAML Config",
+            status: "fail",
+            message: `Invalid YAML syntax in ${configPath}: ${error instanceof Error ? error.message : String(error)}`,
+            fix: `Check ${configPath} for syntax errors`,
+        };
+    }
+}
+/**
+ * Check for orphaned configs (skills synced to disabled tools)
+ */
+export async function checkOrphanedConfigs() {
+    const manifestPath = expandPath("~/.mycelium/manifest.yaml");
+    const exists = await pathExists(manifestPath);
+    if (!exists) {
+        return {
+            name: "Orphaned Configs",
+            status: "pass",
+            message: "No manifest to check against",
+        };
+    }
+    try {
+        const content = await fs.readFile(manifestPath, "utf-8");
+        const manifest = yaml.parse(content);
+        const disabledTools = [];
+        // Find disabled tools
+        for (const [toolId, config] of Object.entries(manifest.tools || {})) {
+            if (config.enabled === false) {
+                disabledTools.push(toolId);
+            }
+        }
+        if (disabledTools.length === 0) {
+            return {
+                name: "Orphaned Configs",
+                status: "pass",
+                message: "No disabled tools to check",
+            };
+        }
+        // Check if disabled tools have skills synced
+        const orphanedTools = [];
+        for (const toolId of disabledTools) {
+            const desc = TOOL_REGISTRY[toolId];
+            if (!desc)
+                continue;
+            const skillsPath = resolvePath(desc.paths.skills);
+            if (skillsPath && await pathExists(skillsPath)) {
+                try {
+                    const entries = await fs.readdir(skillsPath, { withFileTypes: true });
+                    const symlinks = entries.filter((e) => e.isSymbolicLink());
+                    if (symlinks.length > 0) {
+                        orphanedTools.push(desc.display.name);
+                    }
+                }
+                catch {
+                    // Ignore read errors
+                }
+            }
+        }
+        if (orphanedTools.length === 0) {
+            return {
+                name: "Orphaned Configs",
+                status: "pass",
+                message: "No orphaned skill symlinks found",
+            };
+        }
+        return {
+            name: "Orphaned Configs",
+            status: "warn",
+            message: `Found orphaned skill symlinks in: ${orphanedTools.join(", ")}`,
+            fix: "Run: mycelium sync --force",
+        };
+    }
+    catch (error) {
+        return {
+            name: "Orphaned Configs",
+            status: "warn",
+            message: `Error checking orphaned configs: ${error instanceof Error ? error.message : String(error)}`,
+        };
+    }
+}
+//# sourceMappingURL=config-check.js.map

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package/dist/commands/health-checks/formatter.d.ts

@@ -0,0 +1,13 @@
+/**
+ * Formatting functions for doctor output.
+ */
+import type { DoctorResult } from "./types.js";
+/**
+ * Format doctor output for terminal display
+ */
+export declare function formatDoctorOutput(result: DoctorResult): string;
+/**
+ * Format doctor output as JSON
+ */
+export declare function formatDoctorJson(result: DoctorResult): string;
+//# sourceMappingURL=formatter.d.ts.map

package/dist/commands/health-checks/formatter.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"formatter.d.ts","sourceRoot":"","sources":["../../../src/commands/health-checks/formatter.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,YAAY,CAAC;AAE/C;;GAEG;AACH,wBAAgB,kBAAkB,CAAC,MAAM,EAAE,YAAY,GAAG,MAAM,CAgE/D;AAED;;GAEG;AACH,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,YAAY,GAAG,MAAM,CAE7D"}

package/dist/commands/health-checks/formatter.js

@@ -0,0 +1,72 @@
+/**
+ * Formatting functions for doctor output.
+ */
+/**
+ * Format doctor output for terminal display
+ */
+export function formatDoctorOutput(result) {
+    const lines = [];
+    // Header
+    lines.push("Mycelium Doctor");
+    lines.push("===============");
+    lines.push("");
+    // Checks
+    for (const check of result.checks) {
+        let icon;
+        let color;
+        switch (check.status) {
+            case "pass":
+                icon = "\u2714"; // Checkmark
+                color = "\u001b[32m"; // Green
+                break;
+            case "fail":
+                icon = "\u2718"; // X mark
+                color = "\u001b[31m"; // Red
+                break;
+            case "warn":
+                icon = "\u26A0"; // Warning
+                color = "\u001b[33m"; // Yellow
+                break;
+        }
+        const reset = "\u001b[0m";
+        lines.push(`${color}${icon}${reset} ${check.name}`);
+        lines.push(`    ${check.message}`);
+        if (check.fix && check.status !== "pass") {
+            lines.push(`    ${color}Fix:${reset} ${check.fix}`);
+        }
+        lines.push("");
+    }
+    // Summary
+    lines.push("Summary:");
+    lines.push(`  ${result.summary.passed} passed`);
+    if (result.summary.failed > 0) {
+        lines.push(`  \u001b[31m${result.summary.failed} failed\u001b[0m`);
+    }
+    else {
+        lines.push(`  ${result.summary.failed} failed`);
+    }
+    if (result.summary.warnings > 0) {
+        lines.push(`  \u001b[33m${result.summary.warnings} warning${result.summary.warnings !== 1 ? "s" : ""}\u001b[0m`);
+    }
+    else {
+        lines.push(`  ${result.summary.warnings} warnings`);
+    }
+    // Overall status
+    lines.push("");
+    if (result.success) {
+        lines.push("\u001b[32m\u2714 System health check passed\u001b[0m");
+    }
+    else {
+        lines.push("\u001b[31m\u2718 System health check failed\u001b[0m");
+        lines.push("");
+        lines.push("Run suggested fixes above to resolve issues.");
+    }
+    return lines.join("\n");
+}
+/**
+ * Format doctor output as JSON
+ */
+export function formatDoctorJson(result) {
+    return JSON.stringify(result, null, 2);
+}
+//# sourceMappingURL=formatter.js.map

package/dist/commands/health-checks/formatter.js.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/index.d.ts

@@ -0,0 +1,8 @@
+export type { DiagnosticResult, DoctorResult } from "./types.js";
+export { checkGlobalMyceliumExists, checkManifestValid, checkToolPathExists, checkBrokenSymlinks, checkMcpConfigJson, checkMcpConfigYaml, checkOrphanedConfigs, } from "./config-check.js";
+export { checkMcpServerConnectivity } from "./mcp-check.js";
+export { checkMemoryFilesExist, checkMemoryFileSize, } from "./memory-check.js";
+export { checkToolVersions } from "./tool-version-check.js";
+export { runAllChecks } from "./runner.js";
+export { formatDoctorOutput, formatDoctorJson } from "./formatter.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/commands/health-checks/index.d.ts.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/index.js

@@ -0,0 +1,7 @@
+export { checkGlobalMyceliumExists, checkManifestValid, checkToolPathExists, checkBrokenSymlinks, checkMcpConfigJson, checkMcpConfigYaml, checkOrphanedConfigs, } from "./config-check.js";
+export { checkMcpServerConnectivity } from "./mcp-check.js";
+export { checkMemoryFilesExist, checkMemoryFileSize, } from "./memory-check.js";
+export { checkToolVersions } from "./tool-version-check.js";
+export { runAllChecks } from "./runner.js";
+export { formatDoctorOutput, formatDoctorJson } from "./formatter.js";
+//# sourceMappingURL=index.js.map

package/dist/commands/health-checks/index.js.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/mcp-check.d.ts

@@ -0,0 +1,9 @@
+/**
+ * MCP server connectivity checks for doctor command.
+ */
+import type { DiagnosticResult } from "./types.js";
+/**
+ * Check if an MCP server command is accessible
+ */
+export declare function checkMcpServerConnectivity(command: string, args: string[]): Promise<DiagnosticResult>;
+//# sourceMappingURL=mcp-check.d.ts.map

package/dist/commands/health-checks/mcp-check.d.ts.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/mcp-check.js

@@ -0,0 +1,37 @@
+/**
+ * MCP server connectivity checks for doctor command.
+ */
+import { execFile } from "node:child_process";
+import { promisify } from "node:util";
+/**
+ * Check if an MCP server command is accessible
+ */
+export async function checkMcpServerConnectivity(command, args) {
+    const execFileAsync = promisify(execFile);
+    try {
+        await execFileAsync(command, args, { timeout: 5000 });
+        return {
+            name: "MCP Server Connectivity",
+            status: "pass",
+            message: `Command "${command}" is accessible`,
+        };
+    }
+    catch (error) {
+        const err = error;
+        if (err.code === "ENOENT") {
+            return {
+                name: "MCP Server Connectivity",
+                status: "fail",
+                message: `Command "${command}" not found`,
+                fix: `Install or verify the path for "${command}"`,
+            };
+        }
+        // Command exists but may have exited with error (still accessible)
+        return {
+            name: "MCP Server Connectivity",
+            status: "pass",
+            message: `Command "${command}" is accessible`,
+        };
+    }
+}
+//# sourceMappingURL=mcp-check.js.map

package/dist/commands/health-checks/mcp-check.js.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/memory-check.d.ts

@@ -0,0 +1,15 @@
+/**
+ * Memory size/limit checks for doctor command.
+ */
+import { MEMORY_LINE_LIMIT } from "../../core/fs-helpers.js";
+import type { DiagnosticResult } from "./types.js";
+export { MEMORY_LINE_LIMIT };
+/**
+ * Check if memory files exist
+ */
+export declare function checkMemoryFilesExist(): Promise<DiagnosticResult>;
+/**
+ * Check if a memory file exceeds the line limit for a tool
+ */
+export declare function checkMemoryFileSize(filePath: string, maxLines: number): Promise<DiagnosticResult>;
+//# sourceMappingURL=memory-check.d.ts.map

package/dist/commands/health-checks/memory-check.d.ts.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/memory-check.js

@@ -0,0 +1,92 @@
+/**
+ * Memory size/limit checks for doctor command.
+ */
+import * as fs from "node:fs/promises";
+import * as path from "node:path";
+import { expandPath, pathExists } from "@mycelish/core";
+import { MEMORY_LINE_LIMIT } from "../../core/fs-helpers.js";
+export { MEMORY_LINE_LIMIT };
+/**
+ * Check if memory files exist
+ */
+export async function checkMemoryFilesExist() {
+    const memoryBasePath = expandPath("~/.mycelium/global/memory");
+    const exists = await pathExists(memoryBasePath);
+    if (!exists) {
+        return {
+            name: "Memory Files",
+            status: "warn",
+            message: "Memory directory not found",
+            fix: "Run: mycelium init --global",
+        };
+    }
+    try {
+        const scopes = ["shared", "coding", "personal"];
+        let totalFiles = 0;
+        for (const scope of scopes) {
+            const scopePath = path.join(memoryBasePath, scope);
+            if (await pathExists(scopePath)) {
+                const files = await fs.readdir(scopePath);
+                const mdFiles = files.filter((f) => f.endsWith(".md"));
+                totalFiles += mdFiles.length;
+            }
+        }
+        if (totalFiles === 0) {
+            return {
+                name: "Memory Files",
+                status: "warn",
+                message: "No memory files found in any scope",
+                fix: "Add .md files to ~/.mycelium/global/memory/{shared,coding,personal}/",
+            };
+        }
+        return {
+            name: "Memory Files",
+            status: "pass",
+            message: `${totalFiles} memory files found`,
+        };
+    }
+    catch (error) {
+        return {
+            name: "Memory Files",
+            status: "warn",
+            message: `Error checking memory files: ${error instanceof Error ? error.message : String(error)}`,
+        };
+    }
+}
+/**
+ * Check if a memory file exceeds the line limit for a tool
+ */
+export async function checkMemoryFileSize(filePath, maxLines) {
+    if (!(await pathExists(filePath))) {
+        return {
+            name: "Memory File Size",
+            status: "pass",
+            message: `File not present: ${filePath}`,
+        };
+    }
+    try {
+        const content = await fs.readFile(filePath, "utf-8");
+        const lineCount = content.split("\n").length;
+        if (lineCount > maxLines) {
+            return {
+                name: "Memory File Size",
+                status: "warn",
+                message: `${filePath} has ${lineCount} lines (limit: ${maxLines})`,
+                fix: "Run: mycelium sync (smart compression will reduce it)",
+            };
+        }
+        return {
+            name: "Memory File Size",
+            status: "pass",
+            message: `${filePath} is within limits (${lineCount}/${maxLines} lines)`,
+        };
+    }
+    catch (error) {
+        return {
+            name: "Memory File Size",
+            status: "warn",
+            message: `Error reading ${filePath}: ${error instanceof Error ? error.message : String(error)}`,
+        };
+    }
+}
+//# sourceMappingURL=memory-check.js.map

package/dist/commands/health-checks/memory-check.js.map

@@ -0,0 +1 @@
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package/dist/commands/health-checks/runner.d.ts

@@ -0,0 +1,9 @@
+/**
+ * Orchestrates running all doctor health checks.
+ */
+import type { DoctorResult } from "./types.js";
+/**
+ * Run all diagnostic checks
+ */
+export declare function runAllChecks(): Promise<DoctorResult>;
+//# sourceMappingURL=runner.d.ts.map

package/dist/commands/health-checks/runner.d.ts.map

@@ -0,0 +1 @@
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