@moldesk/cli 0.0.1

package/LICENSE

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+MIT License
+
+Copyright (c) 2026 Pourya Kalantari
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

package/dist/commands/doctor.d.ts

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+import type { Command } from "commander";
+export declare function registerDoctorCommand(program: Command): void;

package/dist/commands/doctor.js

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+import { getSystemReport, VERSION } from "@moldesk/core";
+import { checkmark, section } from "../utils/format.js";
+export function registerDoctorCommand(program) {
+    program
+        .command("doctor")
+        .description("Check system compatibility for running models")
+        .action(async () => {
+        const report = await getSystemReport();
+        const { hardware, python, docker } = report;
+        console.log(`MoleculeDesk ${VERSION}`);
+        console.log(section("System"));
+        console.log(`  OS           ${hardware.platform} (${hardware.arch})`);
+        console.log(`  CPU          ${hardware.cpuModel} (${hardware.cpuCores} cores)`);
+        console.log(`  Memory       ${hardware.totalMemoryGb} GB`);
+        console.log(`  ${checkmark(hardware.isAppleSilicon)} Apple Silicon${hardware.isAppleSilicon ? "" : " not detected"}`);
+        console.log(section("Compute"));
+        console.log(`  ${checkmark(python.found)} Python       ${python.found ? python.version : "not found"}`);
+        console.log(`  ${checkmark(docker.installed)} Docker       ${docker.installed ? (docker.running ? `${docker.version} (running)` : `${docker.version} (not running)`) : "not installed"}`);
+        console.log(section("Models"));
+        console.log("  No models installed yet. Run `moldesk list` to see what's available.");
+    });
+}

package/dist/commands/install.d.ts

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+import type { Command } from "commander";
+export declare function registerInstallCommand(program: Command): void;

package/dist/commands/install.js

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+import { listAvailableModels } from "@moldesk/core";
+export function registerInstallCommand(program) {
+    program
+        .command("install <model>")
+        .description("Install a model (coming soon)")
+        .action((model) => {
+        const available = listAvailableModels();
+        const manifest = available.find((m) => m.name === model);
+        if (!manifest) {
+            console.error(`Unknown model "${model}". Run \`moldesk list\` to see available models.`);
+            process.exitCode = 1;
+            return;
+        }
+        console.log(`Installing "${model}" is not yet supported.`);
+        console.log("Track progress at https://github.com/pooriyapfn/moldesk");
+    });
+}

package/dist/commands/list.d.ts

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+import type { Command } from "commander";
+export declare function registerListCommand(program: Command): void;

package/dist/commands/list.js

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+import { listAvailableModels, listInstalledModels } from "@moldesk/core";
+export function registerListCommand(program) {
+    program
+        .command("list")
+        .description("List available and installed models")
+        .action(() => {
+        const available = listAvailableModels();
+        const installed = listInstalledModels();
+        const installedNames = new Set(installed.map((m) => m.name));
+        if (available.length === 0) {
+            console.log("No models found in the registry.");
+            return;
+        }
+        console.log("Available models:\n");
+        for (const model of available) {
+            const status = installedNames.has(model.name) ? "installed" : "not installed";
+            console.log(`  ${model.name.padEnd(12)} ${model.version.padEnd(10)} ${status}`);
+        }
+    });
+}

package/dist/commands/run.d.ts

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+import type { Command } from "commander";
+export declare function registerRunCommand(program: Command): void;

package/dist/commands/run.js

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+export function registerRunCommand(program) {
+    program
+        .command("run <model> <input>")
+        .description("Run a model against an input file (coming soon)")
+        .action((model, input) => {
+        console.log(`Running "${model}" on "${input}" is not yet supported.`);
+        console.log("Track progress at https://github.com/pooriyapfn/moldesk");
+    });
+}

package/dist/index.d.ts

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+#!/usr/bin/env node
+export {};

package/dist/index.js

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+#!/usr/bin/env node
+import { Command } from "commander";
+import { VERSION } from "@moldesk/core";
+import { registerDoctorCommand } from "./commands/doctor.js";
+import { registerListCommand } from "./commands/list.js";
+import { registerInstallCommand } from "./commands/install.js";
+import { registerRunCommand } from "./commands/run.js";
+const program = new Command();
+program
+    .name("moldesk")
+    .description("Install and run computational biology models")
+    .version(VERSION);
+registerDoctorCommand(program);
+registerListCommand(program);
+registerInstallCommand(program);
+registerRunCommand(program);
+program.parse();

package/dist/utils/format.d.ts

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+export declare function checkmark(ok: boolean): string;
+export declare function section(title: string): string;

package/dist/utils/format.js

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+export function checkmark(ok) {
+    return ok ? "✓" : "○";
+}
+export function section(title) {
+    return `\n${title}`;
+}

package/package.json

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+{
+  "name": "@moldesk/cli",
+  "version": "0.0.1",
+  "description": "MoleculeDesk CLI — install and run computational biology models",
+  "license": "MIT",
+  "type": "module",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/pooriyapfn/moldesk.git",
+    "directory": "apps/cli"
+  },
+  "publishConfig": {
+    "access": "public",
+    "provenance": true
+  },
+  "bin": {
+    "moldesk": "./dist/index.js"
+  },
+  "files": [
+    "dist"
+  ],
+  "dependencies": {
+    "commander": "^12.1.0",
+    "@moldesk/core": "0.0.1"
+  },
+  "devDependencies": {
+    "typescript": "^5.6.3",
+    "tsx": "^4.19.1",
+    "@types/node": "^20.16.11"
+  },
+  "scripts": {
+    "dev": "tsx src/index.ts",
+    "build": "tsc -p tsconfig.json",
+    "typecheck": "tsc --noEmit"
+  }
+}