fix: Replace final broken PDB ID (1H1F -> 5NL0) and add verification script

- Replaced 1H1F (failed download) with 5NL0 (Histone H1).
- Added 'scripts/verify_library.js' to audit library integrity.
- Verified that all 300 proteins now have valid local files.

Author: AmirMohammad Cheraghali

scripts/verify_library.js

@@ -0,0 +1,48 @@
+
+import fs from 'fs';
+import path from 'path';
+import { fileURLToPath } from 'url';
+
+const __dirname = path.dirname(fileURLToPath(import.meta.url));
+const LIBRARY_PATH = path.join(__dirname, '../src/data/library.ts');
+const MODELS_DIR = path.join(__dirname, '../public/models');
+
+// Extract IDs from library.ts
+const content = fs.readFileSync(LIBRARY_PATH, 'utf-8');
+const idMatch = content.matchAll(/id:\s*'([a-zA-Z0-9]{4})'/g);
+const expectedIds = Array.from(idMatch).map(m => m[1]);
+
+console.log(`Checking ${expectedIds.length} expected proteins...`);
+
+const missing = [];
+const empty = [];
+
+expectedIds.forEach(id => {
+    const filePath = path.join(MODELS_DIR, `${id}.pdb`);
+
+    if (!fs.existsSync(filePath)) {
+        missing.push(id);
+    } else {
+        const stats = fs.statSync(filePath);
+        if (stats.size < 100) { // arbitrary small size for failed/empty file
+            empty.push(id);
+        }
+    }
+});
+
+console.log('--- REPORT ---');
+if (missing.length > 0) {
+    console.log(`MISSING (${missing.length}):`, missing.join(', '));
+} else {
+    console.log('No missing files.');
+}
+
+if (empty.length > 0) {
+    console.log(`EMPTY/CORRUPT (${empty.length}):`, empty.join(', '));
+} else {
+    console.log('No empty files.');
+}
+
+if (missing.length === 0 && empty.length === 0) {
+    console.log('✅ ALL OK.');
+}

src/data/library.ts

@@ -345,7 +345,7 @@ export const OFFLINE_LIBRARY: LibraryEntry[] = [
     { id: '1D4B', title: 'DNA Pol Beta', category: 'DNA/RNA', description: 'DNA repair.', details: 'The smallest eukaryotic DNA polymerase. It performs "base excision repair" to fix damaged DNA bases.' },
     { id: '1TOS', title: 'Streptokinase', category: 'Enzymes', description: 'Clot activator.', details: 'A bacterial protein that activates human plasminogen. It is used medically to dissolve blood clots in heart attacks.' },
     { id: '1KDM', title: 'Collagenase', category: 'Enzymes', description: 'Tissue remodeling.', details: 'Matrix Metalloproteinase 1 (MMP-1). It is one of the few enzymes capable of cutting the tough triple helix of collagen.' },
-    { id: '1H1F', title: 'Histone H1', category: 'DNA/RNA', description: 'Linker histone.', details: 'Unlike core histones, H1 sits on the outside of the nucleosome to seal the DNA wrap, helping condense chromatin into chromosomes.' },
+    { id: '5NL0', title: 'Histone H1', category: 'DNA/RNA', description: 'Linker histone.', details: 'Unlike core histones, H1 sits on the outside of the nucleosome to seal the DNA wrap, helping condense chromatin into chromosomes.' },
     { id: '1DXT', title: 'Diphtheria Toxin', category: 'Toxins', description: 'Deadly inhibitor.', details: 'A potent toxin that shuts down protein synthesis in host cells by modifying Elongation Factor 2.' },
     { id: '1JIJ', title: 'Luciferase', category: 'Enzymes', description: 'Bioluminescence.', details: 'The enzyme from fireflies that converts chemical energy (ATP) into visible light. Used as a reporter in biological assays.' },
     { id: '5N2E', title: 'Cas13a', category: 'Enzymes', description: 'RNA targeting.', details: 'A CRISPR enzyme that targets RNA instead of DNA. It is used for precise RNA editing and diagnostic detection.' },