made outputs

NIGMS · Jul 11, 2024 · 4ee37fd · 4ee37fd
1 parent 38fd290
commit 4ee37fd
Showing 1 changed file with 33 additions and 3 deletions.
diff --git a/tutorial_1-bismark.ipynb b/tutorial_1-bismark.ipynb
@@ -643,10 +643,22 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 4,
    "id": "24117698-6013-4a55-bd91-dea1a7f8c61e",
    "metadata": {},
-   "outputs": [],
+   "outputs": [
+    {
+     "ename": "NameError",
+     "evalue": "name 'igv_notebook' is not defined",
+     "output_type": "error",
+     "traceback": [
+      "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
+      "\u001b[0;31mNameError\u001b[0m                                 Traceback (most recent call last)",
+      "Cell \u001b[0;32mIn[4], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m b2 \u001b[38;5;241m=\u001b[39m \u001b[43migv_notebook\u001b[49m\u001b[38;5;241m.\u001b[39mBrowser(\n\u001b[1;32m      2\u001b[0m     {\n\u001b[1;32m      3\u001b[0m        \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mgenome\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mmm39\u001b[39m\u001b[38;5;124m\"\u001b[39m,\n\u001b[1;32m      4\u001b[0m        \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mlocus\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mchr6:4,733,000-4,749,000\u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[1;32m      5\u001b[0m     }\n\u001b[1;32m      6\u001b[0m )\n\u001b[1;32m      7\u001b[0m b2\u001b[38;5;241m.\u001b[39mload_track({\n\u001b[1;32m      8\u001b[0m     \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mname\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mSRX271141\u001b[39m\u001b[38;5;124m\"\u001b[39m,\n\u001b[1;32m      9\u001b[0m     \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mpath\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mTutorial_1/bismark/SRX271141.sort.bam\u001b[39m\u001b[38;5;124m\"\u001b[39m,\n\u001b[0;32m   (...)\u001b[0m\n\u001b[1;32m     12\u001b[0m     \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mtype\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124malignment\u001b[39m\u001b[38;5;124m\"\u001b[39m,\n\u001b[1;32m     13\u001b[0m })\n",
+      "\u001b[0;31mNameError\u001b[0m: name 'igv_notebook' is not defined"
+     ]
+    }
+   ],
    "source": [
     "b2 = igv_notebook.Browser(\n",
     "    {\n",
@@ -818,7 +830,25 @@
    ]
   }
  ],
- "metadata": {},
+ "metadata": {
+  "kernelspec": {
+   "display_name": "Python 3 (ipykernel)",
+   "language": "python",
+   "name": "python3"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.12.3"
+  }
+ },
  "nbformat": 4,
  "nbformat_minor": 5
 }