adding denormalize example notebook

linkml · Nov 18, 2024 · 6e4fde2 · 6e4fde2
1 parent 1b131d7
commit 6e4fde2
Showing 1 changed file with 115 additions and 0 deletions.
diff --git a/docs/examples/denormalizing.ipynb b/docs/examples/denormalizing.ipynb
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+{
+ "cells": [
+  {
+   "cell_type": "code",
+   "execution_count": 3,
+   "id": "cd2c8429-a0e7-4a95-a7ed-b1fd8a53b89d",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "from pathlib import Path\n",
+    "\n",
+    "from linkml_runtime.dumpers import yaml_dumper\n",
+    "from linkml_runtime.utils.formatutils import camelcase, underscore\n",
+    "from linkml_runtime.utils.schemaview import SchemaView\n",
+    "from pytest import fixture\n",
+    "\n",
+    "from linkml_map.datamodel.transformer_model import (\n",
+    "    ClassDerivation,\n",
+    "    CopyDirective,\n",
+    "    SlotDerivation,\n",
+    "    TransformationSpecification,\n",
+    ")\n",
+    "from linkml_map.inference.schema_mapper import SchemaMapper\n",
+    "from linkml_map.session import Session\n",
+    "from linkml_map.utils.loaders import load_specification\n",
+    "\n",
+    "REPO_ROOT = Path.cwd().parent.parent"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 6,
+   "id": "121e9e1c-28c2-4fec-bb76-e078836d1f3e",
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "MappingSet\n",
+      "Mapping\n",
+      "\n",
+      "mappings\n",
+      "subject_id\n",
+      "subject_name\n",
+      "object_id\n",
+      "object_name\n",
+      "predicate_id\n"
+     ]
+    }
+   ],
+   "source": [
+    "input_schema = REPO_ROOT / \"tests/input/examples/flattening/source/normalized.yaml\"\n",
+    "output_schema = REPO_ROOT / \"tests/input/examples/flattening/target/denormalized.yaml\"\n",
+    "transformation_specification_file = REPO_ROOT / \"tests/input/examples/flattening/transform/denormalize.transform.yaml\"\n",
+    "# Initialize Session and SchemaBuilder\n",
+    "session = Session()\n",
+    "\n",
+    "source_schema_view = SchemaView(input_schema)\n",
+    "target_schema_view = SchemaView(output_schema)\n",
+    "# Set the source schema in the session\n",
+    "session.set_source_schema(source_schema_view)\n",
+    "\n",
+    "tr_spec = load_specification(transformation_specification_file)\n",
+    "mapper = SchemaMapper()\n",
+    "mapper.source_schemaview = source_schema_view\n",
+    "\n",
+    "target_schema_obj = mapper.derive_schema(\n",
+    "    specification=tr_spec,\n",
+    "    target_schema_id=\"denormalized-view\",\n",
+    "    target_schema_name=\"DenormalizedView\",\n",
+    ")\n",
+    "\n",
+    "yaml_dumper.dump(target_schema_obj, str(\"denormalized_view.yaml\"))\n",
+    "\n",
+    "transformed_sv = SchemaView(\"denormalized_view.yaml\")\n",
+    "\n",
+    "for class_name in transformed_sv.all_classes():\n",
+    "    print(class_name)\n",
+    "print()\n",
+    "for slot_name in transformed_sv.all_slots():\n",
+    "    print(slot_name)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "bc48f85d-bf7b-44fe-90e1-cd256191c06a",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "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": "3.11.0"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}