bug fix

kirbyju · Sep 26, 2024 · 493d82f · 493d82f
1 parent 5f92bff
commit 493d82f
Showing 1 changed file with 7 additions and 2 deletions.
diff --git a/TCIA_Series_UID_Report.ipynb b/TCIA_Series_UID_Report.ipynb
@@ -343,7 +343,12 @@
       "cell_type": "code",
       "source": [
         "# assess all collections\n",
-        "collections = nbia.getCollections(format = \"df\")"
+        "collections = nbia.getCollections()\n",
+        "\n",
+        "# convert the Collection values in the json output to a list\n",
+        "collections = [collection['Collection'] for collection in collections]\n",
+        "\n",
+        "print(len(collections), \"collections were selected.\")"
       ],
       "metadata": {
         "id": "PuS-2Rh3BVbO"
@@ -379,7 +384,7 @@
         "series = pd.DataFrame()\n",
         "\n",
         "for collection in collections:\n",
-        "    seriesDescription = nbia.getSeries(collection, api_url = \"restricted\")\n",
+        "    seriesDescription = nbia.getSeries(collection)\n",
         "    series = pd.concat([series, pd.DataFrame(seriesDescription)], ignore_index=True)\n",
         "\n",
         "series.to_csv('series_metadata_{}.csv'.format(datetime.date.today()))"