fixes after review

EBI-Metagenomics · Apr 10, 2024 · 04cc519 · 04cc519
1 parent 1baeb88
commit 04cc519
Showing 1 changed file with 11 additions and 8 deletions.
diff --git a/src/notebooks/Python Examples/Atlanteco Interactive Sample Map.ipynb b/src/notebooks/Python Examples/Atlanteco Interactive Sample Map.ipynb
@@ -12,8 +12,7 @@
     "author: \"Kate S [Ekaterina Sakharova] (MGnify team)\"\n",
     "categories: [Python]\n",
     "execute: \n",
-    "  enabled: false\n",
-    "  eval: false\n",
+    "  eval: true\n",
     "---"
    ]
   },
@@ -274,22 +273,26 @@
     "We can fetch the Samples for each Study, and concatenate them all into one Dataframe.\n",
     "Each sample has geolocation data in its `attributes` - this is what we need to build a map.\n",
     "\n",
-    "It takes time to fetch data for all samples, so **let's show samples from chosen PRJEB46727 study only.** This study contain assembly data https://www.ebi.ac.uk/metagenomics/studies/MGYS00005810#overview."
+    "It takes time to fetch data for all samples, so **let's show samples from chosen PRJEB46727 study only.** This study contains assembly data https://www.ebi.ac.uk/metagenomics/studies/MGYS00005810#overview."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 266,
+   "execution_count": 1,
    "id": "bc5d0fc9-5c05-4bb1-b401-507b6e8c8877",
    "metadata": {
     "tags": []
    },
    "outputs": [
     {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "fetching MGYS00005810 samples\n"
+     "ename": "NameError",
+     "evalue": "name 'studies' 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[1], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m substudy \u001b[38;5;241m=\u001b[39m \u001b[43mstudies\u001b[49m[studies[\u001b[38;5;124m'\u001b[39m\u001b[38;5;124mattributes.bioproject\u001b[39m\u001b[38;5;124m'\u001b[39m] \u001b[38;5;241m==\u001b[39m \u001b[38;5;124m'\u001b[39m\u001b[38;5;124mPRJEB46727\u001b[39m\u001b[38;5;124m'\u001b[39m]\n\u001b[1;32m      2\u001b[0m studies_samples \u001b[38;5;241m=\u001b[39m []\n\u001b[1;32m      4\u001b[0m \u001b[38;5;28;01mwith\u001b[39;00m Session(\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mhttps://www.ebi.ac.uk/metagenomics/api/v1\u001b[39m\u001b[38;5;124m\"\u001b[39m) \u001b[38;5;28;01mas\u001b[39;00m mgnify:\n",
+      "\u001b[0;31mNameError\u001b[0m: name 'studies' is not defined"
      ]
     }
    ],